Restriction endonuclease enhanced polymorphic sequence detection

ABSTRACT

Provided in part herein is an improved method for the detection of specific polymorphic alleles in a mixed DNA population. The method comprises enriching the relative percentage of a given polymorphic allele that is exponentially amplifiable by PCR. Provided also are methods for selectively enriching target nucleic acid, for example, fetal nucleic acid in a maternal sample. In the case of detecting fetal nucleic acid in a maternal sample, a restriction enzyme is introduced that can discriminate between the alleles of a polymorphic site. In some embodiments, the maternal allele is digested and nucleic acid comprising the paternal allele is relatively enriched.

RELATED PATENT APPLICATIONS

This patent application claims the benefit of U.S. Provisional Patent Application No. 61/039,747, filed on Mar. 26, 2008, entitled RESTRICTION ENDONUCLEASE ENHANCED POLYMORPHIC SEQUENCE DETECTION. This patent application also is related to U.S. Provisional Patent Application No. 60/908,167, filed on Mar. 26, 2007, and Patent Cooperation Treaty International Patent Application No. PCT/US2008/058317, filed on Mar. 26, 2008, and published as Publication No. WO2008/118988 on Oct. 2, 2008, each entitled RESTRICTION ENDONUCLEASE ENHANCED POLYMORPHIC SEQUENCE DETECTION. The entirety of each of these three patent applications is hereby incorporated herein by reference.

FIELD OF THE INVENTION

The invention in part pertains to methods for detecting specific alleles in a mixed nucleic acid sample. Methods provided herein can be used to detect the presence or absence of fetal nucleic acid in a maternal sample.

BACKGROUND

The analysis of circulating nucleic acids has revealed applications in the non-invasive diagnosis, monitoring, and prognostication of many clinical conditions. For example, for prenatal applications, circulating fetal-specific sequences have been detected and constitute a fraction of the total DNA in maternal plasma. The diagnostic reliability of circulating DNA analysis depends on the fractional concentration of the targeted sequence, the analytical sensitivity, and the specificity. The robust discrimination of sequence differences (e.g., single-nucleotide polymorphisms, or SNPs) between circulating DNA species is technically challenging and demands the adoption of highly sensitive and specific analytical methods.

Current techniques to detect sequence differences in a DNA sample include allele-specific PCR, restriction digest and Southern blot hybridization, restriction endonuclease-mediated selective-PCR (REMS-PCR), and competitive PCR methods involving the use of fluorescent detection probes.

Currently available techniques present several disadvantages. For allele-specific PCR, it is often difficult to design assays with a high degree of allele specificity (Nasis et al. Clin Chem. 2004 April; 50(4):694-701). Restriction digest/Southern blot methods require higher amounts of DNA template than the method provided herein, and lack the sensitivity to detect polymorphic sequences comprising a low relative proportion of total DNA. Restriction endonuclease-mediated selective-PCR (REMS-PCR) has the drawback of requiring a thermostable restriction enzyme that cleaves the wild-type allele. REMS-PCR is described in U.S. Pat. No. 6,261,768, which is hereby incorporated by reference. Use of the technique may not always be possible, and this requirement limits the general utility of the REMS-PCR approach. Competitive PCR lacks the sensitivity to detect polymorphic sequences comprising a low relative proportion (<5%) of total DNA. Competitive PCR with allele-specific fluorescent probes lacks the ability to multiplex assays higher than 2-3 assays in a single tube format. In addition, similar methods utilizing methylation differences between DNA species (for example, US Patent Application Publication No. 20070059707, entitled, “Methods for prenatal diagnosis of chromosomal abnormalities”, which is hereby incorporated by reference) are not effective at low copy numbers of genomic DNA.

SUMMARY

The invention in part provides sequence-specific cleavage of nucleic acid to selectively enrich for a particular target nucleic acid. Polymorphic loci are chosen such that only one allele at the polymorphic locus is cleaved by a given cleavage agent, such as a restriction endonuclease. Oligonucleotide primer pairs designed to flank the polymorphism allow amplification of the polymorphic region, or amplicon, by amplification (e.g., PCR). Prior to or during amplification, nucleic acid samples are incubated with the given restriction endonuclease. In some embodiments, the cleavage agent is introduced prior to amplification. This approach results in cleavage of the polymorphic allele or sequence comprising the polymorphic allele that is recognized by the restriction endonuclease, if this allele is present. Cleavage of any template nucleic acid within the amplicon sequence (i.e., between primer pairs) prevents PCR amplification of this template. Therefore, if only one allele of a polymorphism is recognized by the cleavage agent and the corresponding nucleic acid sequence is cleaved by the restriction endonuclease, the relative percentage of the amplifiable alternate polymorphic allele is increased in a manner dependent on the efficiency and specificity of the restriction endonuclease activity. After amplification, the amplified polymorphic alleles can be genotyped or otherwise detected or discriminated by any method known in the art (e.g., using Sequenom's MassARRAY® technology or by RT-PCR).

In some embodiments, the invention in part provides a method for detecting the presence or absence of a target allele at a polymorphic locus in a sample, where the sample contains nucleic acid, which comprises: cleaving a nucleic acid comprising a non-target allele at or near the polymorphic locus with a cleavage agent that recognizes and cleaves the non-target allele, but not the target allele; amplifying uncleaved nucleic acid but not cleaved nucleic acid; and analyzing the amplification products from the previous step to determine the presence or absence of the target allele. In certain embodiments, the method also comprises first obtaining a sample suspected of comprising nucleic acid with target and non-target alleles. In some embodiments, the method is used to distinguish between two individuals, for example, between a mother and a fetus, where the sample comprises both maternal and fetal nucleic acid. Optionally, the method may be used to quantify the target nucleic acid relative to the non-target nucleic acid.

The invention also in part provides methods for enriching for target nucleic acid, comprising cleaving nucleic acid comprising a non-target allele with a restriction endonuclease that recognizes the nucleic acid comprising the non-target allele but not the target allele; and amplifying uncleaved nucleic acid but not cleaved nucleic acid, where the uncleaved, amplified nucleic acid represents enriched target nucleic acid relative to non-target nucleic acid. In some embodiments, methods provided herein may be utilized to determine the presence or absence of target nucleic acid in a background of non-target nucleic acid. In certain embodiments, the amplification products can be analyzed to diagnose, monitor or prognose a clinical condition. Likewise, the amplification products can be analyzed to assist in the diagnosis, prognosis or monitoring of a clinical condition or chromosomal abnormality. Nucleic acid may be selected such that it comprises an allele having a polymorphic site that is susceptible to selective digestion by a cleavage agent, for example.

Methods provided herein are useful for analyzing nucleic acid including, but not limited to, DNA, RNA, mRNA, oligonucleosomal, mitochondrial, epigenetically-modified, single-stranded, double-stranded, circular, plasmid, cosmid, yeast artificial chromosomes, artificial or man-made DNA, including unique DNA sequences, and DNA that has been reverse transcribed from an RNA sample, such as cDNA, and combinations thereof. In some embodiments, methods provided herein are used to detect or selectively enrich RNA.

A nucleic acid may also be characterized as target nucleic acid or non-target nucleic acid, where target nucleic comprises the target allele and non-target nucleic acid comprises the non-target allele. In some embodiments, the target nucleic acid comprises the paternal allele and the non-target nucleic acid comprises the maternal allele. In certain embodiments, the nucleic acid is cell-free nucleic acid or partially cell-free nucleic acid. In some embodiments, the target nucleic acid is apoptotic or partially apoptotic. In certain embodiments, the target nucleic acid is less than 2000, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 80, 70, 60, 50, 40 or less base pairs in length.

Methods provided herein may be used to detect target nucleic acid in a biological sample. In some embodiments, the biological sample is from an animal, often a human. In certain embodiments, the biological sample is selected from the group of whole blood, serum, plasma, umbilical cord blood, chorionic villi, amniotic fluid, cerbrospinal fluid, spinal fluid, lavage fluid, biopsy sample, urine, feces, sputum, saliva, nasal mucous, prostate fluid, semen, lymphatic fluid, bile, tears, sweat, breast milk, breast fluid, embryonic cells and fetal cells, and mixture thereof. In some embodiments, the sample is from a crime scene (e.g., used for forensic analysis). In certain embodiments, the biological sample is obtained through non-invasive means, for example, a blood draw from a pregnant female. In another some embodiments, the biological sample is cell-free. In certain embodiments, the sample is a previously isolated sample of nucleic acids.

In some embodiments, the invention in part provides a method for detecting the presence or absence of fetal nucleic acid in a maternal sample, where the sample contains nucleic acid, which comprises: cleaving nucleic acid comprising a maternal allele with a restriction endonuclease that recognizes and cleaves the nucleic acid comprising the maternal allele but not the paternal allele; amplifying uncleaved nucleic acid but not cleaved nucleic acid; and analyzing the amplification products from the previous step to determine the presence or absence of fetal nucleic acid. In certain embodiments, the sample comprises a mixture of nucleic acids. For example, the mixture may comprise nucleic acid from different species or from different individuals. In some embodiments, the sample is from a pregnant female. Samples can be collected from human females at 1-4, 4-8, 8-12, 12-16, 16-20, 20-24, 24-28, 28-32, 32-36, 36-40, or 40-44 weeks of fetal gestation, and sometimes between 5-28 weeks of fetal gestation. In certain embodiments, methods provided herein may be used to detect the presence or absence of fetal Y-chromosome nucleic acid, thereby determining the sex of the fetus.

In some embodiments, the target nucleic acid comprises a paternal allele. In certain embodiments, the mother is homozygous at the polymorphic site and the fetus is heterozygous at the polymorphic site. In the case when the mother is homozygous at the polymorphic site and the fetus is heterozygous at the polymorphic site, the polymorphic site is considered informative (e.g., see FIG. 5A for examples of informative and non-informative cases). In certain embodiments, the maternal genotype is determined in conjunction with methods provided herein. In some embodiments, the mother is first genotyped (for example, using peripheral blood mononuclear cells (PBMC) from a maternal whole blood sample) to determine the non-target allele that will be recognized and cleaved by the cleavage agent. When the method is used for forensic purposes, the victim may be first genotyped to determine the non-target allele that will be recognized and cleaved by the cleavage agent. Likewise, when used for organ transplant-related applications, the transplant recipient may be first genotyped to determine the non-target allele that will be recognized and cleaved by the cleavage agent.

In certain embodiments, the sample contains nucleic acid from two different individuals. Such instances include, but are not limited to, organ transplant recipients, transfusion recipients, and forensic applications.

In certain embodiments, the sample is from an individual suspected of suffering from a disease, and the non-target allele is a wild-type allele that is selectively cleaved in order to enrich for a disease-related point mutation. In certain embodiments, the disease is cancer. The ras proto-oncogenes, K-ras, N-ras, and H-ras, and the p53 tumor suppressor gene are examples of genes which are frequently mutated in human cancers. Specific mutations in these genes leads to activation or increased transforming potential.

The invention also in part provides methods useful for detecting rare alleles or low copy number alleles. In some embodiments, the target allele is undetectable by conventional or unmodified genotyping methods if the non-target allele is not selectively cleaved. In certain embodiments, the target allele is not detectable unless it is selectively enriched, for example, by methods provided herein. In certain embodiments, the target allele concentration (e.g., allele concentration in a sample) is about 0.1% to about 40%, e.g., about 0.5%, 1%, 2%, 3%, 4%, 5%, 6%, 7%, 8%, 9%, 10%, 11%, 12%, 13%, 14%, 15%, 16%, 17%, 18%, 19%, 20%, 21%, 22%, 23%, 24%, 25%, 26%, 27%, 28%, 29%, 30%, 31%, 32%, 33%, 34% or 35%, of total nucleic acid (e.g., total nucleic acid (e.g., total nucleic acid in a composition or sample), or is less than one of the foregoing percentages. Total nucleic acid includes maternal nucleic acid and any fetal nucleic acid, and total nucleic acid includes non-target allele and any target allele. When fetal nucleic acid is present, target allele is about 50% of the fetal nucleic acid, and non-target allele often includes the other about 50% of the fetal nucleic acid and all maternal nucleic acid, in some embodiments. In certain embodiments, the target nucleic acid number is about 1 to about 5,000 molecules, e.g., about 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 25, 30, 35, 40, 50, 55, 60, 70, 80, 90, 100, 150, 200, 250, 300, 400, 500, 600, 700, 800, 900 or 1000 molecules, or is less than one of the foregoing numbers of molecules. In certain embodiments, the target allele is a mutation, and the non-target allele is the wild-type allele. In certain embodiments, the target allele may be either a somatic or germline mutation. In certain embodiments, another allele or sequence identifier in the same amplicon as the polymorphic locus may be detected. For example, a sequence comprising a target allele may be selectively enriched using methods provided herein, and another sequence identifier may be detected by any method known in the art.

In certain embodiments, there are no other polymorphic loci within the amplicon that may be recognized by the cleavage agent. For example, there is only one polymorphic locus in the amplicon recognized by the cleavage agent in some embodiments.

In certain embodiments, the method optionally comprises first isolating nucleic acid from the sample. DNA isolation from blood, plasma, or serum of the pregnant mother can be performed using any method known to one skilled in the art. Any standard DNA isolation technique can be used to isolate the fetal DNA and the maternal DNA including, but not limited to, QIAamp DNA Blood Midi Kit supplied by QIAGEN. Other standard methods of DNA isolation are described, for example, in (Sambrook et al., Molecular Biology: A laboratory Approach, Cold Spring Harbor, N. Y. 1989; Ausubel, et al., Current protocols in Molecular Biology, Greene Publishing, Y, 1995). A method for isolation of plasma DNA is described in Chiu et al., 2001, Clin. Chem. 47: 1607-1613, which is herein incorporated by reference in its entirety. Other suitable methods are provided in Example 2 of PCT International Application Publication Number 2007/028155, filed on Sep. 1, 2006.

Methods described herein allow for the use of any cleavage agent capable of distinguishing between two different sequences, and cleaving somewhere within the amplicon sequence thereby preventing amplification of the cleaved sequence. The difference between the sequences may be the result of different alleles at one or more polymorphic sites within the sequence. In another example, the difference between the sequences may be the result of two homologous sequences, for example, between paralogous genes or between highly homologous genes such as the RhD gene, which encodes the D polypeptide, and the RHCE gene, which encodes the CcEe polypeptide. An example of a cleavage agent is a restriction enzyme, also referred to as a restriction endonuclease. Multiple restriction endonucleases (available from various vendors) may be selected that correspond to appropriate sequence differences. In some embodiments, the restriction enzyme is a thermostable restriction enzyme. In certain embodiments, the restriction enzyme is Tsp509I. In certain embodiments, a step is added to end the cleaving activity of the cleavage agent, for example, by introducing a protease and/or high temperature prior to amplification.

A restriction endonuclease may be added prior to or during amplification, for example, during an incubation step. In some embodiments, the restriction endonuclease is added less than 5 minutes, 5 minutes, 10 minutes, 20 minutes, 30 minutes, 40 minutes, 50 minutes, 60 minutes, 90 minutes or 120 or more minutes before amplification. Incubation time may be shortened if additional units of restriction enzyme are added to the reaction. Conversely, longer incubation times are often used to allow a reaction to proceed to completion with fewer units of enzyme. This is contingent on how long a particular enzyme can survive (maintain activity) in a reaction. Some enzymes survive for long periods (>16 hours) while others survive only an hour or less in a reaction. In certain embodiments, the restriction enzyme digests greater than 40%, 50%, 60%, 70%, 80%, 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98% or 99% of the non-target nucleic acid. However, if digestion of non-target nucleic acid of less than 40% allows for useful enrichment of target nucleic acid, it is within the scope of the invention. In certain embodiments, the restriction enzyme digests substantially all of the non-target nucleic acid. In certain embodiments, the restriction endonuclease is a thermostable restriction endonuclease. Examples of thermostable endonucleases include, but are not limited to, Bst NI, Bsl I, Tru 9I and Tsp 509 I. In certain embodiments, the cleavage agent is not thermostable, especially when the digestion occurs prior to the amplification step. In some embodiments, the cleavage agent is thermostable and a majority of the digestion of the non-target nucleic acid occurs prior to the amplification step during a pre-incubation step. In certain embodiments, the restriction enzyme digests greater than 80%, 85%, 86%, 87%, 88%, 89%, 90%, 91%, 92%, 93%, 94%, 95%, 96%, 97%, 98% or 99% of the non-target nucleic acid prior to amplification. In another embodiment, one or more incubation steps may be introduced during thermal cycling. Incubation steps are ideally at the optimal temperature for digestion to occur. For example, for Tsp509I the incubation temperature may be 65 degrees C. In certain embodiments, a step is introduced to prevent or to reduce digestion during the amplification step, for example, by introducing a protease to disable a cleavage agent that is a protein.

In some embodiments, the units of restriction enzyme added to the sample is 0.10, 0.25, 0.50, 0.75, 1.0, 2.0 or more. Note that DNA substrates are digested at varying rates, therefore, the actual number of units required for a complete or substantially complete digestion may vary from assay to assay.

In certain embodiments, only one restriction endonuclease is used to digest one or more non-target alleles in a single reaction. For example, a multiplexed assay may be designed where a single restriction endonuclease performs multiple (e.g., greater than 5, 10, 15, 20, 25, 50, 100) digestions across the genome. In certain embodiments, more than one restriction endonuclease (e.g., greater than or equal to 2, 3, 4, 5, 6, 7, 8, 9, 10) is used to make multiple (e.g., greater than 5, 10, 15, 20, 25, 50, 100) digestions across the genome.

Amplification may be performed after or during the cleavage of the non-target allele, and prior to the detection of the target allele. In some embodiments, amplification is performed after cleavage of the non-target allele. Amplification can be performed by any method known in the art, including but not limited to polymerase chain reaction (PCR), ligase chain reaction, transcription-based amplification, restriction amplification, or rolling circle amplification, using primers that anneal to the selected fetal DNA regions. Oligonucleotide primers are selected such that they anneal to the sequence to be amplified. In some embodiments, primers are designed such that one or both primers of the primer pair contain sequence recognizable by one or more restriction endonucleases.

Following amplification, the relative enrichment of the target allele in the sample allows accurate detection of allele frequencies using practically any method of nucleic acid detection known in the art. For example, any of the following methods may be used, including, but not limited to, primer extension or microsequencing methods, ligase sequence determination methods, mismatch sequence determination methods, microarray sequence determination methods, restriction fragment length polymorphism (RFLP) procedures, PCR-based assays (e.g., TAQMAN® PCR System (Applied Biosystems)), nucleotide sequencing methods, hybridization methods, conventional dot blot analyses, single strand conformational polymorphism analysis (SSCP), denaturing gradient gel electrophoresis (DGGE), heteroduplex analysis, mismatch cleavage detection, detection by mass spectrometry, real time-PCR and pyrosequencing.

Methods provided herein may also be multiplexed at high levels in a single reaction. For example, one or more alleles can be detected simultaneously. Multiplexing embodiments are particularly important when the genotype at a polymorphic locus is not known. In some instances, for example when the mother is heterozygous at the polymorphic locus, the assay may not be informative. See FIG. 5A, which further describes the use of polymorphic variants to detect fetal nucleic acid from a maternal sample. In some embodiments, 1 to 1,000 target alleles are assayed (e.g., 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 110, 120, 130, 140, 150, 160, 170, 180, 190, 200, 210, 220, 230, 240, 250, 260, 270, 280, 290, 300, 310, 320, 330, 340, 350, 360, 370, 380, 390, 400, 410, 420, 430, 440, 450, 460, 470, 480, 490 or 500 target alleles are assayed), or a number of target alleles more than one of the foregoing number of target alleles is assayed, where each of the target alleles assayed may or may not be informative (e.g., not every target allele is informative). In certain embodiments, the genotype at the polymorphic locus is known. In certain embodiments, 5 or more, 10 or more, 15 or more, 20 or more, 25 or more, 30 or more, 35 or more, 40 or more, 45 or more, 50 or more, 55 or more, 60 or more, 65 or more, 70 or more, 75 or more, 80 or more, 85 or more or 90 or more target alleles are assayed (e.g., informative target alleles are assayed). The invention in part also includes combinations of different multiplex schemes provided herein.

In certain embodiments, the invention in part provides a method for quantifying a target allele at a polymorphic locus in a sample, where the sample contains nucleic acid, that comprises: digesting nucleic acid containing a maternal allele at the polymorphic locus with an enzyme, such as a restriction endonuclease, that selectively digests the maternal allele, where the selective digestion yields a DNA sample enriched for fetal DNA; determining the maternal or paternal allele frequency using polymorphic markers within the amplicon, and comparing the paternal or maternal allele frequency to a control DNA sample. In some embodiments, a difference in allele frequency is indicative of a chromosomal abnormality. In certain embodiments, the control DNA sample is a competitor oligonucleotide that is introduced to the assay in known quantities.

In certain embodiments, the present invention provides a kit for detecting the presence or absence of target nucleic acid. One component of the kit is primers for amplifying the region of interest. Another component of the kit comprises probes for discriminating between the different alleles of each nucleic acid species.

Certain non-limiting embodiments of the invention are further described in the following Brief Description of the Drawings, Detailed Description and claims.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 is the HpyCH4V digest, which shows allele peak area ratios in a DNA mixture series. Peak area ratio is determined by dividing the calculated peak area of the SNP allele not recognized by HpyCH4V (i.e., target allele) by the total peak area of both SNP alleles present in the mass spectrum.

FIG. 2 is the NlaIII digest, which shows allele peak area ratios in a DNA mixture series. Peak area ratio is determined by dividing the calculated peak area of the SNP allele not recognized by NlaIII (i.e., target allele) by the total peak area of both SNP alleles present in the mass spectrum.

FIG. 3 is the HpyCH4V screenshots of 2% heterozygous DNA mixture. Note the appearance of the ‘A’ and ‘T’ alleles after HpyCH4V digestion of the DNA samples for rs4329520 and rs4658481, respectively.

FIG. 4 is the NlaIII screenshots of 2% heterozygous DNA mixture. Note the appearance of the ‘T’ and ‘A’ alleles after NlaIII digestion of the DNA samples for rs2050927 and rs4329520, respectively.

FIG. 5A shows the use of single nucleotide polymorphisms (SNP's) Fetal Identifiers to confirm the presence of fetal DNA by paternally-inherited alleles. FIG. 5B shows representative mass spectra demonstrating the correlation between fetal DNA amounts estimated from AMG XY and from Fetal Identifier assays. The results were generated using the AMG primers provided in FIG. 9A-9C.

FIG. 6 depicts typical performance results for a qualified fetal identifier. Here the ability of the SNP assay to estimate the quantity of fetal DNA in the background of maternal DNA was verified for a total of 1700 copies and a total of 170 copies using genomic DNA mixtures. Note that the standard deviation of the estimate of fetal DNA increases due to the significant influence of the sampling error at low copy numbers.

FIG. 7 shows the performance of multiplexed SNP assays (21 assays total) for detection of paternally-inherited alleles in a model system.

FIGS. 8A-8C provide the location design of the AMG primers. The amplification primers are underlined once and the extend primers are underlined twice. In addition, competitor sequences are provided. Competitor sequences may be used for quantitative methods. FIG. 8C includes a Results Table that shows the different masses generated by each of the AMG and SRY assays, which may be used to interpret the results from the assays. FIG. 8A discloses SEQ ID NOS 1,169-1,177, respectively, in order of appearance. FIG. 8B discloses SEQ ID NOS 1,169-1,170 and 1,178-1,182, respectively, in order of appearance. FIG. 8C discloses SEQ ID NOS 1,169-1,170, 1,183-1,184, 1,173, 1,185-1,187, 1,173, 1,186 and 1,188-1,191, respectively, in order of appearance.

FIG. 9 provides the location design of the albumin (ALB) primers. The amplification primers are highlighted and the extend primer is underlined twice. Where the PCR primers are provided alone, the sequence-specific portion of the primer is underlined, and the multiplex tag is not underlined. In addition, competitor sequences are provided. Competitor sequences may be used for quantitative methods. FIG. 9 discloses SEQ ID NOS 1,192 and 1,192-1,197, respectively, in order of appearance.

FIG. 10 shows the number of SNPs for the indicated Tsp509I digested sample with greater than 15% primer extension rate and 0.4 or higher increase in informative allele peak area ratio when compared to the matching undigested maternal DNA only (for mixtures) or undigested maternal PBMC DNA (for PBMC and plasma DNAs).

FIG. 11 shows results from 92 fetal identifiers tested in 117 plasma samples from pregnant and non-pregnant women. The x-axis of the dot plot in the top portion indicates the number of fetal identifier alleles detected in a plasma DNA sample (i.e., the number of informative SNPs). Each dot in the dot plot field represents a sample. The top portion of the panel comprises 27 non-pregnant plasma samples. The bottom portion of the panel comprises 90 pregnant, maternal plasma samples. The legend provides sample type and fetal sex (if known).

FIG. 12 is a graph showing the probability of the number of informative SNPs for each of the selected thresholds (1-6) at increasing numbers of total SNPs assayed.

DETAILED DESCRIPTION

It has been determined in the fields of biology and diagnostics that certain nucleic acids are present at very low concentrations in humans. In particular, fetal DNA has been found to exist in maternal plasma (Lo et al. Lancet. Aug. 16, 1997; 350(9076):485-7). This discovery has facilitated the development of non-invasive prenatal diagnostic approaches based simply on the analysis of a maternal blood sample (Lo et al. Am J Hum Genet. 1998 April; 62(4):768-75). The non-invasive nature of maternal plasma-based approaches represents a major advantage over conventional methods of prenatal diagnosis, such as amniocentesis and chorionic villus sampling, which are associated with a small but finite risk of fetal loss. However, a technical challenge experienced by many workers in the field relates to the ability to discriminate the relatively small amount of fetal DNA from the coexisting background of maternal DNA in maternal plasma. During pregnancy, fetal DNA amounts to approximately 3-6% of the total DNA in maternal plasma. Hence, the diagnostic reliability of fetal DNA analysis in maternal plasma generally has depended on the accurate detection of fetal-specific markers.

Methods described herein solve this problem by enriching, relatively, the amount of low copy number nucleic acid before detecting or quantifying the alleles present in the sample. In the case of prenatal diagnostics, the use of restriction endonuclease enhanced polymorphic sequence detection allows for the selective, sensitive detection of fetal nucleic acid from maternal samples. The fetal DNA in the maternal plasma sample is selectively enriched before detecting the alleles present in the maternal sample. To enrich for fetal DNA present in plasma of the mother to allow accurate detection of fetal alleles present in the sample, methods provided herein allow for the cleavage of maternal nucleic acid or nucleic acid of maternal origin. Thus, the maternal DNA can be substantially reduced, masked, or destroyed completely, and the sample is left with DNA enriched for DNA of fetal origin. The selective reduction of maternal DNA can be performed using one or more enzymes, such as restriction endonucleases, which selectively digest nucleic acids which comprise maternal alleles.

The term “sample” as used herein refers to a composition, specimen or culture (e.g., microbiological cultures) that includes nucleic acids. The term “sample” includes biological and environmental samples. A sample may include a specimen of synthetic origin. Biological samples include whole blood, serum, plasma, umbilical cord blood, chorionic villi, amniotic fluid, cerbrospinal fluid, spinal fluid, lavage fluid (e.g., bronchoalveolar, gastric, peritoneal, ductal, ear, athroscopic), biopsy sample, urine, feces, sputum, saliva, nasal mucous, prostate fluid, semen, lymphatic fluid, bile, tears, sweat, breast milk, breast fluid, embryonic cells and fetal cells. A biological sample can be maternal blood, including maternal plasma or serum. In some circumstances, a biological sample is acellular. In other circumstances, a biological sample does contain cellular elements or cellular remnants in maternal blood. In some embodiments, a nucleic acid sample is, or is obtained from, an extracellular or acellular composition (e.g., blood plasma, blood serum, urine).

In some embodiments, a sample comprises a mixture of nucleic acids. For example, the mixture may comprise nucleic acid from different species or from different individuals. In some embodiments, a sample is from a pregnant female or a female suspected of being pregnant. In certain embodiments, the sample is procured through non-invasive means (e.g., a blood draw). In some embodiments the sample is from any animal, including but not limited to, human, non-human, mammal, reptile, cattle, cat, dog, goat, swine, pig, monkey, ape, gorilla, bull, cow, bear, horse, sheep, poultry, mouse, rat, fish, dolphin, whale, and shark, or any animal or organism that may be tested for the presence of target nucleic acid.

In some embodiments, the biological sample is blood, and sometimes plasma. As used herein, the term “blood” encompasses whole blood or any fractions of blood, such as serum and plasma as conventionally defined. Blood plasma refers to the fraction of whole blood resulting from centrifugation of blood treated with anticoagulants. Blood serum refers to the watery portion of fluid remaining after a blood sample has coagulated. Environmental samples include environmental material such as surface matter, soil, water, crime scene samples, and industrial samples, as well as samples obtained from food and dairy processing instruments, apparatus, equipment, utensils, disposable and non-disposable items. These examples are not to be construed as limiting the sample types applicable to the present invention.

The term “non-invasive” as used herein refers to a method for collecting a sample that poses minimal risk to an individual (e.g., the mother, fetus, victim, etc.). An example of a non-invasive method is a blood draw; whereas examples of invasive methods include amniocentesis and chorionic villus sampling, both of which constitute a finite risk to the fetus.

The terms “target” or “target nucleic acid” as used herein refer to any molecule whose presence is to be detected or measured or whose function, interactions or properties are to be studied, where target nucleic comprises the target allele and non-target nucleic acid comprises the non-target allele. Fetal nucleic acid may comprise both target nucleic acid and non-target nucleic when the fetus is heterozygous at a polymorphic locus. Other examples of target nucleic acid include, but are not limited to, trace nucleic acid, mutated nucleic acid, viral nucleic acid and transplant nucleic acid.

The terms “nucleic acid” and “nucleic acid molecule” may be used interchangeably herein. The terms refer to oligonucleotides, oligos, polynucleotides, deoxyribonucleotide (DNA), genomic DNA, mitochondrial DNA (mtDNA), complementary DNA (cDNA), bacterial DNA, viral DNA, viral RNA, RNA, message RNA (mRNA), transfer RNA (tRNA), ribosomal RNA (rRNA), siRNA, catalytic RNA, clones, plasmids, M13, P1, cosmid, bacteria artificial chromosome (BAC), yeast artificial chromosome (YAC), amplified nucleic acid, amplicon, PCR product and other types of amplified nucleic acid, RNA/DNA hybrids and polyamide nucleic acids (PNAs), all of which can be in either single- or double-stranded form, and unless otherwise limited, would encompass known analogs of natural nucleotides that can function in a similar manner as naturally occurring nucleotides and combinations and/or mixtures thereof. Thus, the term “nucleotides” refers to both naturally-occurring and modified/non-naturally-occurring nucleotides, including nucleoside tri, di, and monophosphates as well as monophosphate monomers present within polynucleic acid or oligonucleotide. A nucleotide may also be a ribo; 2′-deoxy; 2′,3′-deoxy as well as a vast array of other nucleotide mimics that are well-known in the art. Mimics include chain-terminating nucleotides, such as 3′-O-methyl, halogenated base or sugar substitutions; alternative sugar structures including nonsugar, alkyl ring structures; alternative bases including inosine; deaza-modified; chi, and psi, linker-modified; mass label-modified; phosphodiester modifications or replacements including phosphorothioate, methylphosphonate, boranophosphate, amide, ester, ether; and a basic or complete internucleotide replacements, including cleavage linkages such a photocleavable nitrophenyl moieties.

In the case of RNA, an RNA may be placentally-expressed RNA in maternal plasma. Background maternal RNA may be selectively digested according to methods provided herein. Also, methods herein may further comprise an additional step of discriminating alleles of RNA which involves reverse transcriptase polymerase chain reaction (RT-PCR). In certain embodiments, fetal RNA may be extracted from maternal body fluids, sometimes whole blood, and sometimes plasma or serum using e.g. RNA extraction methods such as, but not limited to, gelatin extraction method; silica, glass bead, or diatom extraction method; guanidinium thiocyanate acid-phenol based extraction methods; guanidinium thiocyanate acid based extraction methods; guanidine-hydrochloride based extraction methods; methods using centrifugation through cesium chloride or similar gradients; phenol-chloroform based extraction methods; and/or other available RNA extraction methods, as are known in the art for use in extraction of intracellular RNA, including commercially available RNA extraction methods, e.g. by using or adapting or modifying methods of Boom et al. (1990, J. Clin. Microbiol. 28: 495-503); Cheung et al. (1994, J. Clin. Microbiol. 32: 2593-2597); Boom et al. (1991, J. Clin. Microbiol. 29: 1804-1811); Chomczynski and Sacchi (1987, Analytical Biochem. 162: 156-159); Chomczynski, (1993, Biotech. 15: 532-537); Chomczynski and Mackey (1995, Biotechniques 19: 942-945); Chomczynski and Mackey (1995, Anal. Biochem. 225: 163-164); Chirgwin et al. (1979, Biochem. 18: 5294-5299); Foumie et al. (1986 Anal. Biochem. 158: 250-256); and WO97/35589.

The term “amplification reaction” as used herein refers to any in vitro means for multiplying the copies of nucleic acid. “Amplifying” as used herein refers to a step of submitting a sample to conditions sufficient to allow for amplification. Components of an amplification reaction may include, but are not limited to, e.g., primers, a polynucleotide template, polymerase, nucleotides, dNTPs and the like. The term “amplifying” typically refers to an “exponential” increase in target nucleic acid. However, “amplifying” as used herein can also refer to linear increases in the numbers of a select target sequence of nucleic acid, but is different than a one-time, single primer extension step. “Polymerase chain reaction” or “PCR” as used herein refers to a method whereby a specific segment or subsequence of a target double-stranded DNA, is amplified in a geometric progression. PCR is well known to those of skill in the art; see, e.g., U.S. Pat. Nos. 4,683,195 and 4,683,202; and PCR Protocols: A Guide to Methods and Applications, Innis et al., eds, 1990.

“Oligonucleotide” as used herein refers to linear oligomers of natural or modified nucleosidic monomers linked by phosphodiester bonds or analogs thereof. Oligonucleotides include deoxyribonucleosides, ribonucleosides, anomeric forms thereof, peptide nucleic acids (PNAs), and the like, capable of specifically binding to a target nucleic acid. Usually monomers are linked by phosphodiester bonds or analogs thereof to form oligonucleotides ranging in size from a few monomeric units, e.g., 3-4, to several tens of monomeric units, e.g., 40-60. Whenever an oligonucleotide is represented by a sequence of letters, such as “ATGCCTG,” it will be understood that the nucleotides are in 5′-3′ order from left to right and that “A” denotes deoxyadenosine, “C” denotes deoxycytidine, “G” denotes deoxyguanosine, “T” denotes deoxythymidine, and “U” denotes the ribonucleoside, uridine, unless otherwise noted. Oligonucleotides often comprise the four natural deoxynucleotides; however, they may also comprise ribonucleosides or non-natural nucleotide analogs. Where an enzyme has specific oligonucleotide or polynucleotide substrate requirements for activity, e.g., single stranded DNA, RNA/DNA duplex, or the like, then selection of appropriate composition for the oligonucleotide or polynucleotide substrates is well within the knowledge of one of ordinary skill.

As used herein “oligonucleotide primer”, or simply “primer”, refers to a polynucleotide sequence that hybridizes to a sequence on a nucleic acid template and facilitates the amplification of the nucleic acid template, or otherwise plays a role in the detection of the nucleic acid molecule. In amplification embodiments, an oligonucleotide primer serves as a point of initiation of nucleic acid synthesis. Primers can be of a variety of lengths and are often less than 50 nucleotides in length, for example 12-25 nucleotides, in length. The length and sequences of primers for use in PCR can be designed based on principles known to those of skill in the art.

The term “template” refers to any nucleic acid molecule that can be used for amplification in methods described herein. RNA or DNA that is not naturally double stranded can be made into double stranded DNA so as to be used as template DNA. Any double stranded DNA or preparation containing multiple, different double stranded DNA molecules can be used as template DNA to amplify a locus or loci of interest contained in the template DNA.

The term “amplicon” as used herein refers to amplified DNA that has been “copied” once or multiple times, e.g. by polymerase chain reaction. The amplicon sequence falls between the amplification primers.

The term “polymorphic locus” as used herein refers to a nucleic acid region that comprises a polymorphism. The nucleic acid region may be 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 20, 25, 30, 35, 40, 50, 60, 70, 80, 90, 100, 200, 300, 400, 500 or more nucleotides in length.

The term “polymorphism” as used herein refers to an allelic variant. Polymorphisms can include single nucleotide polymorphisms (SNP's) as well as simple sequence length polymorphisms, for example. A polymorphism can be due to one or more nucleotide substitutions at one allele in comparison to another allele or can be due to an insertion or deletion, duplication, inversion and other alterations of one or more nucleotides. Certain polymorphisms include, but are not limited to, restriction fragment length polymorphisms (RFLPs), insertions/deletions, short tandem repeats, such as di-, tri- or tetra-nucleotide repeats (STRs), and the like. As used herein, the term “polymorphism” includes epigenetic variants, as long as cleavage by non-epigenetic-specific cleavage agents is utilized.

The term “allele” as used herein is one of several alternate forms of a gene or non-coding regions of DNA that occupy the same position on a chromosome. The term allele can be used to describe DNA from any organism including but not limited to bacteria, viruses, fungi, protozoa, molds, yeasts, plants, humans, non-humans, animals, and archeabacteria.

Alleles can have an identical sequence or can vary by a single nucleotide or more than one nucleotide. With regard to organisms that have two copies of each chromosome, if both chromosomes have the same allele, the condition is referred to as homozygous. If the alleles at the two chromosomes are different, the condition is referred to as heterozygous. For example, if the locus of interest is SNP X on chromosome 1, and the maternal chromosome contains an adenine at SNP X (A allele) and the paternal chromosome contains a guanine at SNP X (G allele), the individual is heterozygous A/G at SNP X.

As used herein, the term “mutant alleles” may refer to variant alleles that are associated with a disease state, e.g., cancer. The term “sequence identifier” as used herein refers to any sequence difference that exists between two sequences that can be used to differentiate the sequences. In some embodiments, the sequence identifier does not include methylation differences.

As used herein, the term “genotype” refers to the identity of the alleles or non-homologous variants present in an individual or sample. The term “genotyping a sample” or “genotyping an individual” refers to determining a specific allele or specific nucleotide(s) or polymorphism(s) in a sample or carried by an individual at particular region(s).

The term “selectively” as used herein does not suggest an absolute event, but instead a preferential event. For example, “selectively cleaved” is used to indicate one sequence (for example, the non-target sequence) is preferentially cleaved or digested over another sequence (for example, the target sequence). However, some of a target sequence may also be cleaved due to a lack of specificity with the cleavage agent or other variables introduced during the cleavage process.

The term “cleavage agent” as used herein refers to any means that is capable of differentially cleaving two or more sequences based on a sequence difference that exists between the two or more sequences. The cleavage agent may be an enzyme in some embodiments. The cleavage agent may be natural, synthetic, unmodified or modified. In some embodiments, the cleavage agent is a restriction endonuclease. Restriction endonucleases, alternatively called restriction enzymes, are a class of bacterial enzymes that cut or digest DNA at specific sites. Type I restriction endonucleases occur as a complex with the methylase and a polypeptide that binds to the recognition site on DNA. They are often not very specific and cut at a remote site. Type II restriction endonucleases are the classic experimental tools. They have very specific recognition and cutting sites. The recognition sites are short, 4-8 nucleotides, and are usually palindromic sequences. Because both strands have the same sequence running in opposite directions the enzymes make double-stranded breaks, which, if the site of cleavage is off-center, generates fragments with short single-stranded tails; these can hybridize to the tails of other fragments and are called sticky ends. They are generally named according to the bacterium from which they were isolated (first letter of genus name and the first two letters of the specific name). The bacterial strain is identified next and multiple enzymes are given Roman numerals. For example the two enzymes isolated from the R strain of E. coli are designated Eco RI and Eco RII. In some embodiments, the restriction enzyme is a type II restriction endonuclease. In another some embodiments, the restriction enzyme is thermostable.

The term “chromosomal abnormality” as used herein refers to a deviation between the structure of the subject chromosome and a normal homologous chromosome. The term “normal” refers to the predominate karyotype or banding pattern found in healthy individuals of a particular species. A chromosomal abnormality can be numerical or structural, and includes but is not limited to aneuploidy, polyploidy, inversion, a trisomy, a monosomy, duplication, deletion, deletion of a part of a chromosome, addition, addition of a part of chromosome, insertion, a fragment of a chromosome, a region of a chromosome, chromosomal rearrangement, and translocation. A chromosomal abnormality can be correlated with presence of a pathological condition or with a predisposition to develop a pathological condition.

Uses and Advantages Associated with Methods Described Herein

The invention in part provides nucleic acid-based assays that are particularly useful for non-invasive prenatal testing. Methods provided herein may be used, inter alia, to determine the presence of fetal nucleic acid in a sample, to determine the amount of fetal nucleic acid in a sample, to determine the sex of a fetus, and to enrich for a target nucleic acid sequence. The invention in part may be combined with other prenatal methods, such as those described in U.S. application Ser. No. 12/027,954, filed Feb. 7, 2008; PCT Application No. PCT/US07/69991, filed May 30, 2007; PCT Application No. PCT/US07/071232, filed Jun. 15, 2007; PCT Patent Publication Numbers WO 2009/032779 and WO 2009/032781, both filed Aug. 28, 2008, PCT Patent Publication Number WO 2008/118988, filed Mar. 26, 2008, and PCT Patent Application Number PCT/EP05/012707, filed Nov. 28, 2005; or any of the prenatal diagnostic (both invasive and non-invasive) methods disclosed in PCT Patent Publication No. WO 2008/157264, filed on Jun. 12, 2008, all of which are hereby incorporated by reference.

The invention in part may be used to more accurately detect fetal DNA using high frequency polymorphisms that match the criteria provided herein. These polymorphisms are alternatively called fetal identifiers. The criteria includes one or more of the following:

1) One allele of the SNP is recognized by the cleavage agent;

2) The alternate SNP allele is not recognized by the same cleavage agent;

3) No other sites for the cleavage are found ±50 base pair of the SNP within the PCR amplicon; and

4) (Optionally) The minor allele frequency is greater than 0.4 (sometimes across a range of populations).

Examples of fetal identifiers are set forth in Table 16. In some embodiments, the method of detecting the presence or absence of fetal nucleic acid in a sample comprises obtaining or possessing a nucleic acid sample known to be of maternal origin and suspected of comprising fetal nucleic acid; analyzing the nucleic acid sample to determine the maternal genotype at one or more nucleotide polymorphisms selected from the group consisting of the polymorphisms set forth in Table 16; and analyzing the nucleic acid sample to determine the fetal genotype of one or more nucleotide polymorphisms selected from the group consisting of the polymorphisms set forth in Table 16, where a fetal genotype possessing a paternally-inherited allele indicates the presence of fetal nucleic acid, further where nucleic acid comprising a maternal allele is digested using methods provided herein. In some embodiments, one or more of the polymorphisms set forth in Table 16 are used in conjunction with methods provided herein. In another some embodiments, one or more of the multiplex schemes provided in Table 11 is used according to methods provided herein. In certain embodiments, the maternal genotypes are first determined from DNA that is substantially free of fetal nucleic acid. For example, where the sample is blood of from blood, the maternal genotypes may be determined from the portion of the blood that comprises nucleated maternal cells (e.g., white blood cells). In some embodiments, the DNA that is substantially free of fetal nucleic acid is from peripheral blood mononuclear cells. In certain embodiments, the amount of fetal DNA is determined by comparing the relative amount of paternally-inherited alleles to an internal control (e.g., competitor oligonucleotide).

In Table 11, each primer of the amplification primer pair may comprise the entire sequence shown or only the non-underlined sequence, where the underlined portion of the primer is a tag sequence (ACGTTGGATG) (SEQ ID NO: 1) for improved multiplexing and the non-underlined portion is a sequence-specific primer sequence. The tag sequence may be any tag sequence known in the art that improves multiplexing. In certain embodiments, the invention in part includes primers that are substantially similar to the primers provided herein, for example, about 90% or more identical (e.g., primers differ by 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 nucleotide mismatches, or 1-3 nucleotide mismatches, when aligned with one another), and further where the primers are still specific for a given nucleic acid region. For example, one or more bases of a primer sequence may be changed or substituted, for example with an inosine, but the primer still maintains the same specificity and plexing ability. Bases indicated by uppercase text are complementary to the nucleic acid sequence to which the primer hybridizes, and bases indicated by lowercase text are not complementary to the nucleic acid sequence to which the primer hybridizes. Bases indicated in lower case text can be selected to shift or adjust the mass of primers and amplification products.

In particular embodiments, a sequence tag is attached to a plurality of primary and secondary primer pairs provided in Table 11. The sequence tag can be attached to either one or both of the primary and secondary primers from each pair. Typically, the sequence tag is attached to the primary and secondary primer of each pair. The sequence tags used herein can range from 5 up to 20, from 5 up to 30, from 5 up to 40, or from 5 up to 50 nucleotides in length, with a sequence tag of 10-mer length being particularly useful in methods provided herein. The sequence tag need not be the same sequence for each primer pair in the multiplexed amplification reaction, nor the same sequence for a primary and secondary primer within a particular amplification pair. In a particular embodiment, the sequence tag is the same for each primer in the multiplexed amplification reaction. For example, in certain embodiments, the sequence tag is a 10-mer, such as -ACGTTGGATG- (SEQ ID NO: 1), and is attached to the 5′ end of each primary and secondary primer. In particular embodiments of methods provided herein, only a single primer pair is used to amplify each particular nucleic acid target-region.

In certain embodiments, methods provided herein may be used to improve the detection the Y-chromosome in a maternal sample, which may be used to determine the sex of a fetus. The presence or absence of the Y-chromosome in a maternal sample may be determined by performing the SRY assay described in Example 3. The SRY assay is a highly sensitive quantitative internal standard assay that detects trace amounts of the Y-chromosome. In certain embodiments, other polymorphisms located on the Y-chromosome may be assayed according to methods provided herein.

The presence or absence of the Y-chromosome in a maternal sample may also be determined by performing the AMG assay provided herein. The presence or absence of a target nucleic acid may be determined in combination with other assays, such as an RhD assay, blood type assay or sex test assay. Methods provided herein may also be used for other applications, including but not limited to, paternity testing, forensics or quality control assays.

In addition to prenatal applications, methods provided herein find utility in a range of applications, including, but not limited to, detecting rare cancer mutations, detecting transplant rejection and forensics.

In certain embodiments, the total copy number of nucleic acid molecules for the human serum albumin (ALB) gene is determined. Methods for determining the total copy number of nucleic acid present in a sample comprise detecting albumin-specific extension products and comparing the relative amount of the extension products to competitors introduced to the sample. In certain embodiments, the invention in part provides compositions and methods to determine the relative amount of fetal DNA in a sample (e.g., when the sample is plasma from a pregnant woman carrying a male fetus), which comprises annealing one or more albumin gene sequences to the fetal DNA, the primers provided in FIG. 9; performing a primer extension reaction; and analyzing the primer extension products to determine the relative amount of ALB extension products, where maternal albumin nucleic acid has been reduced using methods provided herein. In certain embodiments, the fetal ALB amplicon is first amplified using the amplification primers provided in FIG. 9. The assay is useful to measure how much nucleic acid (e.g., total copy number) is present in a sample or loaded into a particular reaction. The assay may serve as an internal control and a guide to the likelihood of success for a particular PCR reaction. For example, if only 400 copies of ALB are measured then the probability of detecting any fetal DNA may be considered low. In certain embodiments, the competitors provided in FIG. 9 are introduced as an internal standard to determine copy number. In some embodiments, 200, 300, 400, 500, 600, 700, 800 or more competitor molecules are introduced to the assay.

Methods described herein provide a number of advantages. Methods provided herein allow a high sensitivity to detect polymorphic alleles (e.g., fetal identifiers) present at low relative percentages in a DNA mixture and present at low copy number, for example. Methods provided herein may also be incorporated into multiplexed assays in a single reaction in certain embodiments. Methods described herein are readily implemented, and only add a single additional step to the many current detection methods, for example.

Nucleases

Cleavage methods and procedures for selecting restriction enzymes for cutting nucleic acid at specific sites are well known to the skilled artisan. For example, many suppliers of restriction enzymes provide information on conditions and types of DNA sequences cut by specific restriction enzymes, including New England BioLabs, Pro-Mega Biochems, Boehringer-Mannheim, and the like. Nucleic acid to be cleaved often is/are free of certain contaminants such as phenol, chloroform, alcohol, EDTA, detergents, or excessive salts, all of which can interfere with restriction enzyme activity, in certain embodiments.

Embodiments of the invention can be assembled from multiple restriction endonucleases (available from various vendors) that are chosen to correspond to appropriate polymorphic alleles, as long as a restriction endonuclease selects for one polymorphic allele over another and performs a digestion within the amplicon sequence such that it prevents a subsequent amplification event. In some embodiments, the amplicon is chosen such that it contains a variable nuclease restriction site and sequence identifier, which may or may not be the same as the restriction site. Also, the restriction enzyme need not cleave at the polymorphic site, for example, at the variable nucleotide of a SNP.

Restriction enzymes are traditionally classified into three types on the basis of subunit composition, cleavage position, sequence-specificity and cofactor-requirements. However, amino acid sequencing has uncovered extraordinary variety among restriction enzymes and revealed that at the molecular level there are many more than three different kinds.

Type I enzymes are complex, multisubunit, combination restriction-and-modification enzymes that cut DNA at random far from their recognition sequences. Originally thought to be rare, we now know from the analysis of sequenced genomes that they are common. Type I enzymes are of considerable biochemical interest but they have little practical value since they do not produce discrete restriction fragments or distinct gel-banding patterns.

Type II enzymes cut DNA at defined positions close to or within their recognition sequences. They produce discrete restriction fragments and distinct gel banding patterns, and they are the only class used in the laboratory for DNA analysis and gene cloning. Type II enzymes frequently differ so utterly in amino acid sequence from one another, and indeed from every other known protein, that they likely arose independently in the course of evolution rather than diverging from common ancestors.

The most common type II enzymes are those like HhaI, HindIII and NotI that cleave DNA within their recognition sequences. Enzymes of this kind are available commercially. Most recognize DNA sequences that are symmetric because they bind to DNA as homodimers, but a few, (e.g., BbvCI: CCTCAGC) recognize asymmetric DNA sequences because they bind as heterodimers. Some enzymes recognize continuous sequences (e.g., EcoRI: GAATTC) in which the two half-sites of the recognition sequence are adjacent, while others recognize discontinuous sequences (e.g., BglI: GCCNNNNNGGC (SEQ ID NO: 2)) in which the half-sites are separated. Cleavage leaves a 3″-hydroxyl on one side of each cut and a 5″-phosphate on the other. They require only magnesium for activity and the corresponding modification enzymes require only S-adenosylmethionine. They tend to be small, with subunits in the 200-350 amino acid range.

The next most common type II enzymes, usually referred to as “type IIs” are those like FokI and AlwI that cleave outside of their recognition sequence to one side. These enzymes are intermediate in size, 400-650 amino acids in length, and they recognize sequences that are continuous and asymmetric. They comprise two distinct domains, one for DNA binding, the other for DNA cleavage. They are thought to bind to DNA as monomers for the most part, but to cleave DNA cooperatively, through dimerization of the cleavage domains of adjacent enzyme molecules. For this reason, some type IIs enzymes are much more active on DNA molecules that contain multiple recognition sites. A wide variety of Type IIS restriction enzymes are known and such enzymes have been isolated from bacteria, phage, archeabacteria and viruses of eukaryotic algae and are commercially available (Promega, Madison Wis.; New England Biolabs, Beverly, Mass.). Examples of Type IIS restriction enzymes that may be used with methods described herein include, but are not limited to enzymes such as those listed in Table IA.

Recognition/ Enzyme-Source Cleavage Site Supplier Alw I - Acinetobacter lwoffii GGATC(4/5) NE Biolabs Alw26 I - Acinetobacter lwoffi GTCTC(1/5) Promega Bbs I - Bacillus laterosporus GAAGAC(2/6) NE Biolabs Bbv I - Bacillus brevis GCAGC(8/12) NE Biolabs BceA I - Bacillus cereus 1315 IACGGC(12/14) NE Biolabs Bmr I - Bacillus megaterium CTGGG(5/4) NE Biolabs Bsa I - Bacillus stearothermophilus 6-55 GGTCTC(1/5) NE Biolabs Bst71 I - Bacillus stearothermophilus 71 GCAGC(8/12) Promega BsmA I - Bacillus stearothermophilus A664 GTCTC(1/5) NE Biolabs BsmB I - Bacillus stearothermophilus B61 CGTCTC(1/5) NE Biolabs BsmF I - Bacillus stearothermophilus F GGGAC(10/14) NE Biolabs BspM I - Bacillus species M ACCTGC(4/8) NE Biolabs Ear I - Enterobacter aerogenes CTCTTC(1/4) NE Biolabs Fau I - Flavobacterium aquatile CCCGC(4/6) NE Biolabs Fok I - Flavobacterium okeonokoites GGATG(9/13) NE Biolabs Hga I - Haemophilus gallinarum GACGC(5/10) NE Biolabs Ple I - Pseudomonas lemoignei GAGTC(4/5) NE Biolabs Sap I - Saccharopolyspora species GCTCTTC(1/4) NE Biolabs SfaN I - Streptococcus faecalis ND547 GCATC(5/9) NE Biolabs Sth132 I - Streptococcus thermophilus CCCG(4/8) No commercial supplier (Gene ST132 195: 201-206 (1997))

A third major kind of type II enzyme, more properly referred to as “type IV” are large, combination restriction-and-modification enzymes, 850-1250 amino acids in length, in which the two enzymatic activities reside in the same protein chain. These enzymes cleave outside of their recognition sequences; those that recognize continuous sequences (e.g., Eco57I: CTGAAG) cleave on just one side; those that recognize discontinuous sequences (e.g., BcgI: CGANNNNNNTGC (SEQ ID NO: 3)) cleave on both sides releasing a small fragment containing the recognition sequence. The amino acid sequences of these enzymes are varied but their organization are consistent. They comprise an N-terminal DNA-cleavage domain joined to a DNA-modification domain and one or two DNA sequence-specificity domains forming the C-terminus, or present as a separate subunit. When these enzymes bind to their substrates, they switch into either restriction mode to cleave the DNA, or modification mode to methylate it.

As discussed above, the length of restriction recognition sites varies. For example, the enzymes EcoRI, SacI and SstI each recognize a 6 base-pair (bp) sequence of DNA, whereas NotI recognizes a sequence 8 bp in length, and the recognition site for Sau3AI is only 4 bp in length. Length of the recognition sequence dictates how frequently the enzyme will cut in a random sequence of DNA. Enzymes with a 6 bp recognition site will cut, on average, every 4⁶ or 4096 bp; a 4 bp recognition site will occur roughly every 256 bp.

Different restriction enzymes can have the same recognition site—such enzymes are called isoschizomers. Table IB shows that the recognition sites for SacI and SstI are identical. In some cases isoschizomers cut identically within their recognition site, but sometimes they do not. Isoschizomers often have different optimum reaction conditions, stabilities and costs, which may influence the decision of which to use. Table IB is provided only to show exemplary restriction enzymes, and does not limit the scope of the invention in any way.

TABLE IB Enzyme Recognition Sequence BamH I GGATCC CCTAGG Not I GCGGCCGC CGCCGGCG Sau3A I GATC CTAG Sac I GAGCTC CTCGAG Sst I GAGCTC CTCGAG Hinf I GANTC CTNAG Xho II PuGATCPy PyCTAGPu

Restriction recognition sites can be unambiguous or ambiguous. The enzyme BamHI recognizes the sequence GGATCC and no others; therefore it is considered “unambiguous.” In contrast, HinfI recognizes a 5 bp sequence starting with GA, ending in TC, and having any base between (in Table IB, “N” stands for any nucleotide). HinfI has an ambiguous recognition site. XhoII also has an ambiguous recognition site: Py stands for pyrimidine (T or C) and Pu for purine (A or G), so XhoII will recognize and cut sequences of AGATCT, AGATCC, GGATCT and GGATCC.

The recognition site for one enzyme may contain the restriction site for another. For example, note that a BamHI recognition site contains the recognition site for Sau3AI. Consequently, all BamHI sites will cut with Sau3AI. Similarly, one of the four possible XhoII sites will also be a recognition site for BamHI and all four will cut with Sau3AI.

Also from Table IB, most recognition sequences are palindromes—they read the same forward (5′ to 3′ on the top strand) and backward (5′ to 3′ on the bottom strand). Most, but certainly not all recognition sites for commonly-used restriction enzymes are palindromes. Most restriction enzymes bind to their recognition site as dimers (pairs).

Nucleic Acid Detection

Whether detecting sequence differences, detecting amplification products or primer extension products, any detection or discrimination method known may be utilized. These methods include, but are not limited to, primer extension reactions, mass spectrometry, hybridization using at least one probe, hybridization using at least one fluorescently labeled probe, direct sequencing, cloning and sequencing, and electrophoresis. Polymorphism detection methods known may also include, for example, microsequencing methods, ligase sequence determination methods (e.g., U.S. Pat. Nos. 5,679,524 and 5,952,174, and WO 01/27326), digital PCR (U.S. Pat. No. 6,143,496), mismatch sequence determination methods (e.g., U.S. Pat. Nos. 5,851,770; 5,958,692; 6,110,684; and 6,183,958), microarray sequence determination methods, restriction fragment length polymorphism (RFLP) procedures, PCR-based assays (e.g., TAQMAN® PCR System (Applied Biosystems)), nucleotide sequencing methods, hybridization methods, conventional dot blot analyses, single strand conformational polymorphism analysis (SSCP, e.g., U.S. Pat. Nos. 5,891,625 and 6,013,499; Orita et al., Proc. Natl. Acad. Sci. U.S.A 86: 27776-2770 (1989)), denaturing gradient gel electrophoresis (DGGE), heteroduplex analysis, mismatch cleavage detection, and techniques described in Sheffield et al., Proc. Natl. Acad. Sci. USA 49: 699-706 (1991), White et al., Genomics 12: 301-306 (1992), Grompe et al., Proc. Natl. Acad. Sci. USA 86: 5855-5892 (1989), and Grompe, Nature Genetics 5: 111-117 (1993), detection by mass spectrometry (e.g., US 20050079521, which is hereby incorporated by reference), real time-PCR (e.g., U.S. Pat. No. 5,210,015, U.S. Pat. No. 5,487,972, both of which are hereby incorporated by reference), or hybridization with a suitable nucleic acid primer specific for the sequence to be detected. Suitable nucleic acid primers can be provided in a format such as a gene chip.

Primer extension polymorphism detection methods, also referred to herein as “microsequencing” methods, typically are carried out by hybridizing a complementary oligonucleotide to a nucleic acid carrying the polymorphic site. In these methods, the oligonucleotide typically hybridizes adjacent to the polymorphic site. As used herein, the term “adjacent” refers to the 3′ end of the extension oligonucleotide being sometimes 1 nucleotide from the 5′ end of the polymorphic site, often 2 or 3, and at times 4, 5, 6, 7, 8, 9, or 10 nucleotides from the 5′ end of the polymorphic site, in the nucleic acid when the extension oligonucleotide is hybridized to the nucleic acid. The extension oligonucleotide then is extended by one or more nucleotides, often 1, 2, or 3 nucleotides, and the number and/or type of nucleotides that are added to the extension oligonucleotide determine which polymorphic variant or variants are present. Oligonucleotide extension methods are disclosed, for example, in U.S. Pat. Nos. 4,656,127; 4,851,331; 5,679,524; 5,834,189; 5,876,934; 5,908,755; 5,912,118; 5,976,802; 5,981,186; 6,004,744; 6,013,431; 6,017,702; 6,046,005; 6,087,095; 6,210,891; and WO 01/20039. The extension products can be detected in any manner, such as by fluorescence methods (see, e.g., Chen & Kwok, Nucleic Acids Research 25: 347-353 (1997) and Chen et al., Proc. Natl. Acad. Sci. USA 94/20: 10756-10761 (1997)) and by mass spectrometric methods (e.g., MALDI-TOF mass spectrometry). Oligonucleotide extension methods using mass spectrometry are described, for example, in U.S. Pat. Nos. 5,547,835; 5,605,798; 5,691,141; 5,849,542; 5,869,242; 5,928,906; 6,043,031; 6,194,144; and 6,258,538.

Microsequencing detection methods often incorporate an amplification process that precedes the extension step. The amplification process typically amplifies a region from a nucleic acid sample that comprises the polymorphic site. Amplification can be carried out by utilizing a pair of oligonucleotide primers in a polymerase chain reaction (PCR), in which one oligonucleotide primer typically is complementary to a region 3′ of the polymorphism and the other typically is complementary to a region 5′ of the polymorphism. A PCR primer pair may be used in methods disclosed in U.S. Pat. Nos. 4,683,195; 4,683,202, 4,965,188; 5,656,493; 5,998,143; 6,140,054; WO 01/27327; and WO 01/27329 for example. PCR primer pairs may also be used in any commercially available machines that perform PCR, such as any of the GENEAMP® Systems available from Applied Biosystems, for example.

A microarray can be utilized for determining whether a polymorphic variant is present or absent in a nucleic acid sample. A microarray may include any oligonucleotides described herein, and methods for making and using oligonucleotide microarrays suitable for prognostic use are disclosed in U.S. Pat. Nos. 5,492,806; 5,525,464; 5,589,330; 5,695,940; 5,849,483; 6,018,041; 6,045,996; 6,136,541; 6,142,681; 6,156,501; 6,197,506; 6,223,127; 6,225,625; 6,229,911; 6,239,273; WO 00/52625; WO 01/25485; and WO 01/29259, for example. A microarray typically comprises a solid support and the oligonucleotides may be linked to this solid support by covalent bonds or by non-covalent interactions. The oligonucleotides may also be linked to the solid support directly or by a spacer molecule. A microarray may comprise one or more oligonucleotides complementary to a polymorphic site within a nucleotide sequence

EXAMPLES

The Examples hereafter illustrate embodiments of the invention and are not limiting.

Example 1 Restriction Endonuclease Enhanced Polymorphic Sequence Detection Using HpyCH4V and NlaIII

The effectiveness of restriction endonuclease enhanced polymorphic sequence detection was demonstrated using several restriction endonucleases (REs), including HpyCH4V and NlaIII (purchased from New England BioLabs, Inc). Both of these enzymes were separately tested in multiplexed genotyping reactions for their ability to specifically cleave one allele of a given polymorphism while allowing PCR amplification of the remaining allele of the polymorphism. See Table 2 for the polymorphisms tested with each enzyme.

Two CEPH DNA samples were mixed in varying ratios to generate DNA samples composed of 0%, 2%, 5%, 20%, 50% and 100% DNA heterozygous for both alleles of the SNP, with the remaining DNA being homozygous for the allele recognized by the RE. Table 3 shows DNA samples used in these studies and corresponding genotype information. Mixtures composed of NA05995 and NA10849 were used for experiments with HpyCH4V enzyme, and mixtures composed of NA10862 and NA10846 were used for experiments with NlaIII enzyme.

TABLE 2 Restriction enzymes recognizing SNPs Allele Restriction SNP Digested Enzyme Polymorphism Alleles by RE rs10430091 A/T NlaIII rs2050927 A/T A NlaIII, HpyCH4V rs4329520 A/T T, T* rs4657868 A/T HpyCH4V rs4658481 A/T A rs6693568 A/T rs860954 A/T rs9431593 A/T *Both enzymes, NlaIII and HpyCH4V, digest the T allele.

TABLE 3 DNA samples used and genotypes Restriction SNP genotypes Enzyme DNA* rs2050927 rs4329520 rs4658481 HpyCH4V NA05995 TA TA NA10849 T A NlaIII NA10862 AT TA NA10846 A T *DNA samples were obtained from Coriell CEPH DNA collection

TABLE 4 DNA mixtures (Listed as ng DNA per reaction) Relative percentage unrecognized SNP allele 0% 2% 5% 20% 50% 100% HpyCH4V NA05995 0 0.6 0.6 0.6 0.6 0.6 NA10849 0.6 29.4 11.4 2.4 0.6 0 NlaIII NA10862 0 0.6 0.6 0.6 0.6 0.6 NA10846 0.6 29.4 11.4 2.4 0.6 0 NOTE: Based on 3 pg DNA for haploid human genomic equivalent, 0.6 ng DNA is equal to 200 copies of genomic target DNA in the mixtures.

After preparation of the sample DNA mixtures, PCR cocktail was prepared according to Table 5 below (using multiplexed PCR primers as shown in Table 6) to either include no restriction endonuclease or 0.25 U of restriction endonuclease per each sample reaction. PCR cocktail was aliquoted to a 96-well plate to include 7 replicates of each DNA mixture for each enzyme condition. After addition of DNA to the PCR cocktail mixtures, samples were incubated at 37° C. for 1 hour to allow enzyme digestion of DNA samples and then immediately thermal cycled using standard conditions (Table 7).

TABLE 5 PCR cocktail preparation for each multiplex without DNA addition No RE HpyCH4V NlaIII N = 1 N = 1 N = 1 Reagents Final Conc (uL) (uL) (uL) Water n/a 3 2.95 2.975 10x PCR Buffer 1.25x 3.125 3.125 3.125 (HotStar Taq Buffer) MgCl₂ (25 mM) 1.625 mM 1.625 1.625 1.625 PCR Nucleotide Mix 0.2 mM 0.5 0.5 0.5 (for UNG use) (10 mM dATP, dCTP, dGTP, dUTP) F/R Primer mix (0.5uM) 0.1 μM 5 5 5 5U/ul HpyCH4V or 0.25U/rxn — 0.05 0.025 10U/ul NlaIII 1 U/μl Uracil-DNA- 1.25U/rxn 1.25 1.25 1.25 Glycosylase (UDG) HotStar Taq (5U/uL) 2.5U/rxn 0.5 0.5 0.5 DNA - added separately varies 10 10 10 Total volume n/a 25 25 25

TABLE 6A PCR Primer sequences for SNPs SEQ ID SEQ ID SNP Forward PCR Primer NO: Reverse PCR Primer NO: rs10430091 ACGTTGGATGCACAAGATTCTGAAACTTAG  4 ACGTTGGATGGCTGTTTAACTCAGCATG 12 rs2050927 ACGTTGGATGTTGGGTGCAGAGTAGTCATC  5 ACGTTGGATGTTCTAGCTTGCTTCTCCTCC 13 rs4329520 ACGTTGGATGATGTCCACCTCCTGCTCCAC  6 ACGTTGGATGGAAAGTTGTCGTGGTAGAGG 14 rs4657868 ACGTTGGATGCTAGCGTACCCAATGGAATC  7 ACGTTGGATGCTAACCAGGAAAAGACACCC 15 rs4658481 ACGTTGGATGGTGGTAGAAACAAATGTCAGC  8 ACGTTGGATGCTGCTAAGCATGAGAGAAAG 16 rs6693568 ACGTTGGATGGGCCTGTTCATTCTCAGAAA  9 ACGTTGGATGTGACTAGGAAATCACACTGG 17 rs860954 ACGTTGGATGTAGCCTTTAGTCTTGATGCC 10 ACGTTGGATGCCATTCTTGTATGTTTTGTC 18 rs9431593 ACGTTGGATGGCCTCAGTAGTCACATAAGG 11 ACGTTGGATGTTGAGATCAGTGTCGGTTCC 19

TABLE 6B Extend Primers SNP SEQ ID NO: Extend Primer rs10430091 20 gTGTTTAACTCAGCATGTGGGAA rs2050927 21 CCTCCATCATCCTTAGC rs4329520 22 GCGTGGTTCTAGACTTATGC rs4657868 23 cAAGACACCCCCATACATTA rs4658481 24 TAAGCATGAGAGAAAGGGAAAG rs6693568 25 atGAAATCACACTGGACATTTT rs860954 26 GTTTTGTCTTTTTCTGTATACTCATG rs9431593 27 TGTTCCTGACTCTCAAAAT

TABLE 7 Thermal cycling conditions Temp. Time Cycles 37° C.  1 hour  1 94° C. 15 min  1 94° C. 20 sec 56° C. 30 sec {close oversize bracket} 45 cycles 72° C.  1 min 72° C.  3 min  1  4° C. forever  1

Amplicons generated during PCR were genotyped with the extend primers in Table 5 using standard iPLEX™ assay and MassARRAY® technology (Jurinke, C., Oeth, P., van den Boom, D., MALDI-TOF mass spectrometry: a versatile tool for high-performance DNA analysis. Mol. Biotechnol. 26, 147-164 (2004); and Oeth, P. et al., iPLEX™ Assay: Increased Plexing Efficiency and Flexibility for MassARRAY® System through single base primer extension with mass-modified Terminators. SEQUENOM Application Note (2005), both of which are hereby incorporated by reference).

Results

Digestion of DNA with both restriction enzymes allowed detection of minor alleles when they were present at ratios as low as 2% heterozygous DNA. This is in contrast to undigested DNA samples where minor alleles were only reliably detected when present at ratios of 20% heterozygous DNA and higher. When allele peak area ratios are considered, the effect of restriction endonuclease digest is even more apparent. HpyCH4V digested samples showed minor allele peak area ratios of 0.35-0.45 in 2% heterozygous DNA mixtures, while minor allele peak area ratios of 2% heterozygous DNA mixtures were at background levels without enzyme digestion (FIG. 1). While the increases in allele peak area ratio were not as high when using the NlaIII restriction endonuclease, the results were similar (FIG. 2). Example screen shots of the mass spectrum in 2% heterozygous DNA mixtures with and without HpyCH4V (FIG. 3) or NlaIII (FIG. 4) are shown below.

Optimization Studies

Initial optimization studies for enzyme concentration and pre-PCR incubation time of HpyCH4V digestion were performed using 5% heterozygous DNA mixtures (0.6 ng heterozygous DNA, 11.4 ng homozygous DNA). Based on these experiments, maximal peak area ratios were obtained with incubation times as short as 5 minutes and 0.25U HpyCH4V enzyme.

Example 2 Restriction Endonuclease Enhanced Polymorphic Sequence Detection Using Tfii

A similar experiment was performed as described in Example 1 using a different restriction endonuclease, TfiI. In this experiment, the TfiI restriction endonuclease selectively recognized and cleaved the ‘C’ allele of the ‘C/T’ SNP, rs4487973. The SNP rs4487973 occurs in the following genomic sequence on chromosome 1: CACACAGTTAGGATT[C/T]ACCTGAGCTTGTCCC (SEQ ID NO: 28). For these studies, two CEPH DNA samples, one homozygous ‘C’ and the other heterozygous ‘C/T’ for the rs4487973 SNP, were mixed in varying ratios to generate DNA mixtures containing 0%, 1%, 2.5%, 10%, 50% of the rs4487973 ‘T’ allele. The TfiI restriction endonuclease was either added or not added to each mixture to determine the endonucleases' effect on detecting the polymorphic sequence. Of the mixtures not digested with TfiI enzyme, the rs4487973 ‘T’ allele was detected in the 10%, and 50% ‘T’ allele mixtures, but not the 0%, 1%, and 5% ‘T’ allele DNA mixtures. However, of samples digested with TfiI enzyme, the rs4487973 ‘T’ allele was detectable in 1%, 5%, 10% and 50% ‘T’ allele mixtures. These results indicate the utility of this method to improve detection of polymorphic alleles present at low relative concentrations in a sample.

Example 3 Fetal Identifiers Sex Test And Copy Number Determination

Selection of SNPs

Analysis of paternally-inherited alleles in clinical samples and correlation with Y-chromosome frequency in male fetuses was performed with a total of 16 SNPs. SNP assays for analysis of clinical samples were multiplexed as 8-plexes. All SNPs had a minor allele frequency (maf) of ˜0.4 in all ethnic groups and were unlinked.

For performance evaluation of a universal Fetal Identifier panel that can be multiplexed with disease-specific markers, a new panel of 87 A/T SNPs with a pan-ethnic maf>0.4 was selected and multiplexed into 16-plexes.

Method of SNP Analysis

Analysis of SNPs in maternal buffy coat and maternal plasma was performed using the iPLEX™ assay and MassARRAY® technology. In brief, the target region surrounding the SNP is first amplified by PCR. Subsequently an oligonucleotide primer is annealed to the PCR product and is extended allele-specifically by a single nucleotide using a mixture of 4 terminator nucleotides and a DNA polymerase. The extension products are transferred to a miniaturized chip array and are analyzed by MALDI-TOF Mass Spectrometry. Determination of the molecular mass of extension products allows unambiguous identification of the SNP allele present in the sample. The peak area ratio of mass signals allows the estimation of the relative abundance of the alleles in a given sample. FIG. 5A provides an overview of the assay used for SNP analysis.

Clinical Samples

The total sample set consisted of 35 paired blood/plasma samples from pregnant Caucasian woman (nine 1st trimester; twelve 2nd trimester; fourteen 3rd trimester). The subset of samples used for correlation of Y-chromosome frequency and paternally-inherited alleles in maternal plasma consisted of 19 samples of pregnant Caucasian woman carrying a male fetus.

DNA Extraction

DNA extraction was performed from 1 ml of maternal plasma using the Qiagen® MinElute kit for fetal genotyping. DNA extraction from frozen blood (minus plasma) was performed from 4 ml using Qiagen's PureGene kit for maternal genotyping.

Results

An assay targeting sequence differences in the Amelogenin region on the X and Y chromosome was used to assess the relative amount of fetal DNA extracted from plasma of pregnant woman carrying a male fetus. Details of the AMG assay are depicted in FIGS. 8A-8C. X and Y-specific sequences can be discriminated by sequence specific iPLEX extension products and their respective mass signals. The peak area ratio of the extension products allows estimation of the relative amount of fetal DNA, because the Y-specific sequences represent 50% of the total fetal DNA contribution.

Sixteen of nineteen (84%) plasma samples with a male fetus showed a Y-chromosome frequency of higher than 5%, indicating presence of at least 10% fetal DNA in the extracted DNA. FIG. 6 depicts typical performance results for a qualified fetal identifier. Here the ability of the SNP assay to estimate the quantity of fetal DNA in the background of maternal DNA was verified for a total of 1700 copies and a total of 170 copies using genomic DNA mixtures. Note that the standard deviation of the estimate of fetal DNA increases due to the significant influence of the sampling error at low copy numbers

Table 8 provides a list of SNPs that were multiplexed at 10+ plexing level and passed all phases of the validation. The following shows the validation scheme, performance criteria and model system used to qualify multiplex SNP assays for their utility in identifying the presence for fetal DNA:

Phase I

-   -   Step 1: Initial Fetal Identifier (FI) screening parameters         -   FI's are multiplexed from pool of 87 A/T SNPs (mass             difference 56 Da)         -   Genotyping of control DNAs (CEPH populations)     -   Step 2: Advance screening criteria         -   Reproducibility of genotyping calls in 4 replicates         -   Unambiguous genotype data (assay shows no interfering or             unpredicted mass signals)         -   Allelic skew in heterozygous DNAs         -   Variance of allelic ratio in heterozygous DNAs     -   Step 3: Replex successful SNPs and repeat Phase 1 screening to         generate multiplexes of 10+ SNPs

Multiplexed SNPs passing Phase I test criteria are tested in Phase II

Phase II

-   -   Step 1: Mixtures of Genomic DNA are used for assessing FI         reliability         -   Mix Mother: 2000 copies of DNA1         -   Mix 10%: 3600 copies DNA 1/400 copies of DNA 2         -   Mix 20%: 1600 copies DNA 1/400 copies of DNA 2     -   Analysis of allele frequency variation in 4 mixture series and 8         replicate measurements. Sensitivity and specificity are         calculated for the detection of low copy number allele in         background of high copy number allele

Multiplexed SNPs passing Phase II test criteria are tested in Phase III

Phase III

-   -   Step 1: Various DNAs are mixed to emulate different         maternal-fetal combinations         -   Plate 1: 3600 copies DNA maternal/400 copies DNA fetal         -   Plate 2: 1600 copies DNA maternal/400 copies DNA fetal         -   Each plate contains 88 sample mixtures, 4 positive and 4             negative controls. Analysis of allele frequency variation in             4 mixture series, where sensitivity and specificity are             calculated for the detection of low copy number allele in             background of high copy number allele

Application of this assay panel to a model system for the detection of fetal DNA in maternal background showed that paternally-inherited fetal alleles can be detected with a sensitivity of 95% at 100% specificity if the sample preparation method can enrich the relative amount of fetal DNA to 20%. In Table 8, the minor allele frequency (MAF) for each SNP from different ethnic populations is provided. The ethnic populations are defined by the HapMap Project, where CEU represents individuals of Northern and Western Europe descent, HCB represents Han Chinese in Beijing, JAP represents Japanese in Tokyo, and YRI represents the Yoruba in Ibadan, Nigeria.

TABLE 8 MAF MAF MAF MAF SNP CEU HCB JAP YRI rs11166512 0.43 0.41 0.50 0.49 rs11184494 0.50 0.40 0.48 0.50 rs11247894 0.43 0.39 0.32 0.44 rs12089156 0.46 0.49 0.44 0.43 rs12125888 0.40 0.43 0.48 0.43 rs12136370 0.42 0.48 0.42 0.48 rs12143315 0.40 0.42 0.42 0.42 rs12759642 0.39 0.48 0.48 0.42 rs156988 0.46 0.40 0.45 0.41 rs2050927 0.44 0.50 0.41 0.49 rs213624 0.48 0.44 0.40 0.34 rs2454175 0.46 0.48 0.43 0.40 rs4329520 0.45 0.43 0.40 0.44 rs4487973 0.47 0.43 0.44 0.40 rs454782 0.48 0.40 0.41 0.46 rs4648888 0.33 0.30 0.33 0.46 rs635364 0.49 0.40 0.46 0.43 rs660279 0.41 0.49 0.50 0.39 rs6687785 0.48 0.46 0.48 0.44 rs7551188 0.46 0.49 0.45 0.46 rs9431593 0.41 0.43 0.49 0.40

A multiplexed panel of 16 SNPs was analyzed with maf>0.3 in the same maternal plasma DNA extraction and established a baseline of maternal genotypes by analyzing DNA from PBMCs. Using the maternal genotype information, paternally-inherited alleles were identified in plasma samples and estimated the amount of fetal DNA from the peak area ratio of extension products representing paternally-inherited fetal alleles and maternal alleles.

The AMG XY frequency was then compared with the allele-frequency of paternally-inherited fetal alleles in informative SNPs. This comparison revealed that samples with a positive Y-frequency of 10% (used as a Limit-of-quantitation threshold) or more have significantly higher differences between maternally and paternally-inherited fetal allele-frequencies (p-value<0.001; Fishers' exact test). This data suggests that Fetal Identifiers can be used as a non-gender specific approach for identification of the presence of fetal DNA. FIG. 7 exemplifies those results.

Example 4 Restriction Endonuclease Enhanced Polymorphic Sequence Detection Using Tsp509I

The effectiveness of restriction endonuclease enhanced polymorphic sequence detection was demonstrated using Tsp509I (purchased from New England BioLabs, Inc). Tsp509I was tested in multiplexed genotyping reactions for its ability to specifically cleave one allele of a given polymorphism while allowing PCR amplification of the remaining allele of the polymorphism. See Table 9 for Tsp509I enzyme characteristics.

TABLE 9 Enzyme source E. coli expressing cloned Tsp509I gene from Thermus species ITI346 Recognition sequence 5′ . . . ↓AATT . . . 3′ Vendor New England Biolabs, Inc. Catalogue Numbers R0576S, R0576L Stock concentration 10U/ul Digestion temperature 65° C. Thermostable? Yes Timesaver Enzyme? Yes Heat Inactivated at ≦80° C. No

Potential SNPs for use with Tsp509I

SNPs meeting the allele frequency criteria above were further screened for three characteristics:

-   -   1) one allele of the SNP is recognized by Tsp509I     -   2) the alternate SNP allele is not recognized by the Tsp509I     -   3) no other sites for Tsp509I are found ±50 bp of the SNP within         the PCR amplicon

338 SNPs passing these criteria are shown in Table 10.

TABLE 10 SNPs meeting criteria for Tsp509I screening rs10021843 rs11221268 rs1447660 rs2367059 rs4130306 rs623052 rs7703746 rs10030074 rs11221881 rs1458207 rs2373814 rs4311632 rs6431221 rs7725509 rs1003016 rs11227624 rs1462685 rs2401505 rs4399565 rs644818 rs7737946 rs10034384 rs11249671 rs1470207 rs2427102 rs4420242 rs6468296 rs7741525 rs1004395 rs11563997 rs1503660 rs2435556 rs4420719 rs6488494 rs7763815 rs10102733 rs11635372 rs1514424 rs2451984 rs4438888 rs6494229 rs7769867 rs1010479 rs11655850 rs1536069 rs2462049 rs4442368 rs650616 rs7810506 rs10110766 rs11685586 rs1540885 rs247852 rs4452041 rs6542638 rs7818415 rs10139699 rs11727770 rs1543513 rs2507947 rs4488809 rs6556642 rs7820949 rs10179379 rs11759755 rs1548605 rs2517540 rs4489023 rs6569474 rs7828293 rs10234234 rs11771935 rs1593443 rs2522215 rs4533845 rs6575809 rs7831906 rs10260483 rs11773909 rs1597205 rs263025 rs453609 rs6582294 rs7845628 rs1026791 rs11835780 rs163027 rs264039 rs4589569 rs6592545 rs7899028 rs10276221 rs12007 rs166576 rs2647415 rs4667489 rs6595267 rs7900002 rs10278812 rs12034424 rs16830436 rs2657300 rs4673821 rs664358 rs7915178 rs1029176 rs12107918 rs17074340 rs2676403 rs4674824 rs6707911 rs7985274 rs1041409 rs12158945 rs17079191 rs269882 rs4678766 rs6766358 rs8016543 rs10421748 rs12439908 rs17152417 rs2723307 rs4680921 rs6807437 rs8063107 rs10510379 rs12442455 rs17156383 rs273172 rs4683161 rs683262 rs880385 rs1054067 rs12450474 rs17170027 rs2734574 rs4684986 rs686851 rs910500 rs1070036 rs1259733 rs1720839 rs2792780 rs4708590 rs6878291 rs9285190 rs10740169 rs12607335 rs1789529 rs2804649 rs4716945 rs6897414 rs9312864 rs10754776 rs12618834 rs179596 rs2820107 rs474077 rs691 rs9314663 rs10777944 rs12674093 rs1797700 rs2821312 rs4762447 rs6929257 rs9322744 rs10784847 rs12675087 rs1822243 rs2826737 rs4764597 rs6941784 rs9352730 rs10785736 rs12783667 rs1850422 rs2828793 rs4783152 rs6962207 rs9356029 rs10795112 rs12903747 rs1870836 rs2834712 rs4815732 rs7002630 rs9428474 rs10806232 rs1297215 rs1885121 rs2846589 rs4845519 rs7041138 rs9515625 rs10818726 rs13110085 rs1904161 rs2865878 rs4869315 rs7076662 rs9554894 rs10822434 rs13130326 rs1904185 rs2889515 rs4889072 rs7082218 rs9555581 rs10832561 rs13155942 rs1910369 rs2903113 rs4894467 rs7084321 rs9594249 rs10840805 rs13255815 rs1912619 rs2928668 rs4897019 rs7094883 rs9599645 rs10851704 rs13269702 rs1916803 rs2937415 rs4928169 rs7144509 rs9630712 rs10860857 rs13331222 rs2007475 rs2984523 rs494220 rs7151741 rs9652080 rs10880400 rs1335075 rs2030926 rs299080 rs4952502 rs7205009 rs9692857 rs10884498 rs1342995 rs2034877 rs2993531 rs4953843 rs725849 rs9787011 rs10893402 rs1346718 rs2038710 rs3010003 rs4974594 rs726395 rs9818611 rs10898954 rs1363267 rs2063506 rs302137 rs514714 rs7266163 rs9838013 rs10901705 rs1367452 rs2092797 rs309564 rs550408 rs7294836 rs9864594 rs10953770 rs1372688 rs2126316 rs3128688 rs558692 rs7320201 rs9886292 rs10956363 rs1376827 rs2168524 rs313937 rs561470 rs7323716 rs9929404 rs10964719 rs1378933 rs2191076 rs331893 rs586030 rs7356482 rs9987005 rs10996924 rs1401454 rs2207800 rs356643 rs6005754 rs748773 rs9989393 rs11017936 rs1418136 rs2241491 rs373321 rs6019378 rs7588807 rs9992168 rs11079666 rs1420562 rs2247858 rs3816551 rs6043856 rs7604667 rs11082446 rs1432865 rs2298810 rs3902451 rs6139756 rs7679285 rs11099210 rs1439047 rs2304748 rs3902595 rs614004 rs7688917 rs11105611 rs1444647 rs230526 rs3912319 rs6142841 rs7689368 rs11125229 rs1445496 rs2322301 rs3913810 rs614290 rs7691446

Multiplexing Tsp509I SNPs

Multiplexed assays were designed using 274 SNPs from Table 10. The resulting multiplexed SNPs are shown in Table 11A with associated PCR primers and Extend primer for each SNP, and genomic sequence comprising the amplicon sequence (with the SNP allele variants indicated by brackets) are shown in Table 11B.

TABLE 11A SNPs and PCR and Extend primer sequences used for multiplex assays with Tsp509I enzyme Multiplex SNP_ID SEQ ID NO: 2nd-PCR Primer SEQ ID NO: 1st-PCR Primer SEQ ID NO: Extend Primer W1 rs644818  29 ACGTTGGATGTGTCAGACTTGTCTGAAGGC 303 ACGTTGGATGCAGATAGTGCTTGAGAGGAG 577 GAAGGCCCACAGAAA W1 rs11685586  30 ACGTTGGATGCCAAAGTGAACTTGGGTCTC 304 ACGTTGGATGGGGAGAAAGAAACAACCTGC 578 CGGGGACTCCAGGAA W1 rs7094883  31 ACGTTGGATGAAGCCTGTGGACTGTTAACC 305 ACGTTGGATGGACATTAAGCCCAAAACAGG 579 AACCTGCTGACTTCAA W1 rs10021843  32 ACGTTGGATGGTGAACTTTTTTTGCAAGGG 306 ACGTTGGATGAAAGCTGGCCAGGGATATAG 580 TTGCAAGGGAGGAAAA W1 rs7588807  33 ACGTTGGATGCATCAGCAGTGTGTAAGAGG 307 ACGTTGGATGCTGGTGAGTAAGCATTGAAG 581 CTTCACCAGCACTAAGA W1 rs1297215  34 ACGTTGGATGTCCAAGGTGGTCTTTTGGAG 308 ACGTTGGATGGTTGGTAAATGGTAGAGCCG 582 tcTGGCTCTGGGTTCAA W1 rs4667489  35 ACGTTGGATGTTTGTTAGCAGCTATGCTGG 309 ACGTTGGATGGGAGTAGTCTTCACCTGTAG 583 cGCTATGCTGGAGCAAA W1 rs7082218  36 ACGTTGGATGGTCTCTTAAGCAACGAGCGG 310 ACGTTGGATGAGAAGGGCAACCAACAACTG 584 CGGGTGCAGTGGGTGCAA W1 rs2903113  37 ACGTTGGATGACACTGTTCGCATCTGCATC 311 ACGTTGGATGGTAGCTCAGGCAAGGAGATT 585 ccacTCCCAAGCCACAAAT W1 rs10139699  38 ACGTTGGATGTGTTTCTCAGGAGTTCCCAG 312 ACGTTGGATGGCAGGAGAGGAGAAAAAGAC 586 ccaGAGTTCCCAGCAGAAT W1 rs4452041  39 ACGTTGGATGTGTGTCCAGTGACCATAAGG 313 ACGTTGGATGGTTGACGCAAAGCAAGTGAC 587 tcCCTGTCAGTGAGGAAAA W1 rs13130326  40 ACGTTGGATGTGGTTCCAGTTCTCAAGCTC 314 ACGTTGGATGTCTTAGGAAACCACGTCCAC 588 CCTTTGATGAGGAGCTGTA W1 rs2865878  41 ACGTTGGATGATTGTGGCTGTGCTGTCCTC 315 ACGTTGGATGCGTATCTGTCTTGGATCCTG 589 gagaGGGGACGATGCAGAA W1 rs11079666  42 ACGTTGGATGGGAACACCTCCATTCTGATG 316 ACGTTGGATGACACAAGTGGGAGAGGTTTG 590 cctcGGGTCCTGGAACCCTA W1 rs2401505  43 ACGTTGGATGACACCATCTCGGTAGGAAAG 317 ACGTTGGATGCAGTTTGTTAGGTTCTCTGG 591 AGTTTGACAGGAAGAAGAAA W1 rs4889072  44 ACGTTGGATGCAGGAAGTATATGAGATCTGG 318 ACGTTGGATGTACACAGTAAGTTCCCTGAG 592 AGATCTGGAGGATGGAGAAA W1 rs7151741  45 ACGTTGGATGAAGGGTGAGGTGAGATAACG 319 ACGTTGGATGCTGGTTCCAGCACAAGTTTC 593 AGATAACGTGATCCATTTAAT W1 rs10034384  46 ACGTTGGATGGAGTGAGTCCTTTGATCCAG 320 ACGTTGGATGCTACTTCCAAAGATTGTTG 594 cGAAAGTGCATAGCTTGTTAA W1 rs1822243  47 ACGTTGGATGCTCACAGTGAAAGTGAACAG 321 ACGTTGGATGCCCGTATATGTAGCCACTTT 595 tctcATGCTTTCAGCTCCAAAA W1 rs7604667  48 ACGTTGGATGGACATATAATACCTTGGTCCC 322 ACGTTGGATGCGTCTGCTTCCTTCATAGAG 596 caCTTGGTCCCTTATTGTTCAA W1 rs7845628  49 ACGTTGGATGGAGAGGTTGGGAAAAATGTG 323 ACGTTGGATGGGAAGATGCACCACTTTCTG 597 gaaacTGTGAAGAAAGAGGAGG W1 rs7915178  50 ACGTTGGATGAGCTTTCCTAAACCTGTGAC 324 ACGTTGGATGAAACCACTTCCTGCTTTCCG 598 ctacACCTGTGACATTGGTTTAA W1 rs7691446  51 ACGTTGGATGACCACCATCACAAAAAGAGG 325 ACGTTGGATGTATGTTTGCATGTTGTTTG 599 aaCATCACAAAAAGAGGCTCTAA W1 rs4684986  52 ACGTTGGATGCCATGTGAGGAGGCATGTTT 326 ACGTTGGATGTTAATGCCAGACAAGCCTCC 600 tttggGGAGGTACATGAGGGAAA W1 rs4894467  53 ACGTTGGATGGTATTGGGTTACATGATG 327 ACGTTGGATGAGAAGGTCCTGTTAGTAGGG 601 ATGATGTAATAACTAAAATGCAAT W1 rs16830436  54 ACGTTGGATGGCGTGCATGGACTTCACAAG 328 ACGTTGGATGCCACTGGCCTTTTCAAAGTC 602 ACAAGAAGAAATGTCTAGATTTAA W1 rs7810506  55 ACGTTGGATGGAGCATCTTCAAATATCCCC 329 ACGTTGGATGAACAACCGTTTTCTCTTGGG 603 ctataCCCTTTAGAATGACATTCAA W1 rs11017936  56 ACGTTGGATGAATCCATTTCAGACGCAGCC 330 ACGTTGGATGAATGTCAGAGATCACAAGCC 604 ttacCTCATCAATGCAATCTGGAAA W1 rs17170027  57 ACGTTGGATGGGAACTGATGGAAGAAAAGC 331 ACGTTGGATGCCTTTTGTGAGCAAGATGCC 605 cAGAATAGAATAGGAACTCAGAAAA W1 rs1378933  58 ACGTTGGATGTGGGCACTGTAATACAAAGG 332 ACGTTGGATGTCCACACATGGTATCACAAC 606 gggcgTTCAATGGAGAAGACAGAAT W1 rs4438888  59 ACGTTGGATGCTGTTGCCTAAAGTTCTCGC 333 ACGTTGGATGACATTACTTGAGACCCACAC 607 CTCGCTATTGTTAGCATTAATAAGAT W1 rs2846589  60 ACGTTGGATGGTGATATTGAGTCTCACCTG 334 ACGTTGGATGCTCTTTCTCATTATCATTC 608 GAAAGCAAAATGTGTATTTTTACAAA W1 rs2298810  61 ACGTTGGATGTGGTCCAGTAGGAAAACAGG 335 ACGTTGGATGTTCACTGACTCATGGATGGG 609 cccctAAAACAGTTCGTATTTCAGAAT W1 rs2034877  62 ACGTTGGATGGCATTTTGGGAAATAATACC 336 ACGTTGGATGGGGAAGTCAGGATGAAAGTG 610 cttgTGGGAAATAATACCACATCCAAT W1 rs269882  63 ACGTTGGATGTACCTTCTATATCCAAGGAC 337 ACGTTGGATGATCCTCCCTTTTGAAACTTG 611 ggGGACATAAAACTTCAATGATAAGAA W1 rs10102733  64 ACGTTGGATGTCAGAAGGAGAAGTACCAGC 338 ACGTTGGATGGCTAGGATTACACGTGTGAG 612 gggcCCAGCCTTGATGTGGGGAAAAAA W1 rs1259733  65 ACGTTGGATGCTGTCTGTGTGATCATCAGG 339 ACGTTGGATGTGACGCTAAAGACTGAGTGG 613 gatggCTGTGTGATCATCAGGGAGAAT W1 rs9555581  66 ACGTTGGATGCATTGAAACCTGGGATACAC 340 ACGTTGGATGAAAGGCAATCTCGACCTCAC 614 tctcTGCTGAGGTATCATCTCTAAGAAT W1 rs10510379  67 ACGTTGGATGTGCTCACACAAAGCCTGTTG 341 ACGTTGGATGGAATAACTATGAGCTCATGG 615 ggtcgCTTCACACGGACATGCGTGACAA W2 rs11835780  68 ACGTTGGATGTGAATCCCATGAGCATGAGC 342 ACGTTGGATGATTCCACACAGCATTGCCTC 616 GAGCCCACTGCTACA W2 rs166576  69 ACGTTGGATGGCCTTATTAGCTCTCACTTG 343 ACGTTGGATGCATCTCATGAGAAAGGCATC 617 ACATGGTCGCCAAAA W2 rs880385  70 ACGTTGGATGGAAAGGCCACAAAGCTGTTG 344 ACGTTGGATGCACATGCATGAGTATGGGAC 618 ACTGGCTGGGAAAAA W2 rs4708590  71 ACGTTGGATGTGCAGAGCTGCGAGAAGAAG 345 ACGTTGGATGAAGAGAAGGGCTTTGCATCC 619 aCACTGCACAGCCAAT W2 rs13110085  72 ACGTTGGATGAGCAAGTGTTCCCTTTTTGG 346 ACGTTGGATGCACGCGTAGGCTATGGTTTA 620 GGGGCTGGTAGGAAAT W2 rs1797700  73 ACGTTGGATGAAGTGCTGGGATTACAGGAG 347 ACGTTGGATGGAGACAGGCAAAGATGCAAC 621 TGGCCAGAACTAATCAA W2 rs1885121  74 ACGTTGGATGGAGACGATTCTTCAGGAAAC 348 ACGTTGGATGCCATGACTCTAGTGACCTTC 622 AAGACAAAGGACACCAA W2 rs1904161  75 ACGTTGGATGTAAGCATCCATGGACCTACC 349 ACGTTGGATGCAGGTGGTAAATGTGCTCAG 623 caGACCTACCACCCAAAT W2 rs10901705  76 ACGTTGGATGTCTGAAGGTAGACCTGGATG 350 ACGTTGGATGCTCAGGATATCATTACACACC 624 aCTGAGAGCAACCACTAA W2 rs7820949  77 ACGTTGGATGCGAGTTGAAGATCCCATACG 351 ACGTTGGATGCTCGGTGAACTATAGGAATC 625 CATACGAGTGGGAGAAAT W2 rs7144509  78 ACGTTGGATGAAGCAACTGGCACTCCTAAG 352 ACGTTGGATGGAGTGTTGTGATGCATGCC 626 TGGCACTCCTAAGACCAAA W2 rs8016543  79 ACGTTGGATGTTATACAGGTTCCAGCCAGC 353 ACGTTGGATGCAGAGAGAAAAGGGAGTAGG 627 ACCTGATACTGAAGCCAAA W2 rs1458207  80 ACGTTGGATGTCTCAAATATCTAAGTGGG 354 ACGTTGGATGGCAAAACTTCACCTCAATAA 628 ggTCTAAGTGGGAGTCCAA W2 rs13155942  81 ACGTTGGATGCGGTTTCTTTTGAGGACTGG 355 ACGTTGGATGGCTCAGTGTCTGACAAAAGC 629 ctcTCTTTCTCCAGGGATGA W2 rs3912319  82 ACGTTGGATGACTGGCCATGCAGATGTAAG 356 ACGTTGGATGCACTGCCCATAGACTCTTTC 630 gCCAACAGAGAAAGTAACAA W2 rs9929404  83 ACGTTGGATGGAGATGAGTAAGAGCAGGTG 357 ACGTTGGATGCTCATAAGACCCTGAACACC 631 GAGCAGGTGAAATGTTTCTA W2 rs4974594  84 ACGTTGGATGGAAAAATCCATCCTCTGAACC 358 ACGTTGGATGCCATGGCTCGTGTTCTTAAC 632 cTCCTCTGAACCTTATCAAAA W2 rs4673821  85 ACGTTGGATGGTCACTGAACTCTGGAGTAG 359 ACGTTGGATGGCAGTTTTCAAAGGAAACCC 633 agCAGATAGCCTCTTGTGAAT W2 rs10784847  86 ACGTTGGATGTCCCCCTACTTGCTTGAAAG 360 ACGTTGGATGTGAAAGAGTGAAGGGAGGAC 634 ggggaTTGAAAGCAGGGCATA W2 rs1444647  87 ACGTTGGATGCTCCCATCTATGATTTCCAG 361 ACGTTGGATGATGCATATCTGGAGACACAC 635 ccacATCATGCCTCTATTGACA W2 rs12007  88 ACGTTGGATGAATGAGAGCTTGCTTACTTC 362 ACGTTGGATGAGTGTCGTTCAGACACTAGC 636 ctAGCTTGCTTACTTCTAAAAA W2 rs6569474  89 ACGTTGGATGCATTGCAGTAACTGGAGGTC 363 ACGTTGGATGGGCACAGTAGTTCAGTTACC 637 gATCATTGTATAGGTTCCCAGA W2 rs7076662  90 ACGTTGGATGAACACCAAGGAAAGCGGATG 364 ACGTTGGATGCTGCTTAGTAACTTCTGTCC 638 AGCGGATGAAGCAATACATTAA W2 rs6043856  91 ACGTTGGATGTAATACCCTGAGCAAGGACG 365 ACGTTGGATGGTGCATTTAAAATCCATGTG 639 cccatGACGTCACCCTGTAAAAA W2 rs6142841  92 ACGTTGGATGGTCCATTTAACGGTGTGGAG 366 ACGTTGGATGGGTTCATGAAATGTTAGTTCC 640 cccccGTGTGGAGAAGTGCGAGT W2 rs748773  93 ACGTTGGATGCACCAGTGCAAACACACAAC 367 ACGTTGGATGCCTGATTGTTTTGGAAGGAG 641 gaagtAATGGAGAACCTGGTTAA W2 rs1363267  94 ACGTTGGATGTGTGCAGCACTTTTCACAAG 368 ACGTTGGATGCAGGGTCACATCACAGATTG 642 cccCAAGTTGAAAACTTATTCCAA W2 rs2723307  95 ACGTTGGATGGGATCAAGAGGAAAAAATGGG 369 ACGTTGGATGTAGTTTCAATCTCTGTGCTG 643 cATGGGAAACATGCCTCAATAAAT W2 rs4589569  96 ACGTTGGATGTACATTCAGACGATAGTGCC 370 ACGTTGGATGAGACCAAGTAACCCCAAACC 644 ggtaAGACGATAGTGCCAGAAAAT W2 rs6766358  97 ACGTTGGATGCACATGCTAGAGAAAGAGGG 371 ACGTTGGATGTATGTCCTTCCCTGATTTTC 645 ccctcAATCATTCTATGAAGCCAAT W2 rs7689368  98 ACGTTGGATGAGTTGCCATGTTTCCACAGG 372 ACGTTGGATGGACTAATACTCAGGTTGAGG 646 ccCAGGATCCTCTAGATTGTGAAAA W2 rs7900002  99 ACGTTGGATGCTACGTGACCCAAAGTTCAG 373 ACGTTGGATGTCTCACTCCTGGTTACCTAC 647 ggggcCCCAAAGTTCAGGATGGTAA W2 rs4489023 100 ACGTTGGATGGGGCTCTTATTATTGTACTC 374 ACGTTGGATGAACAAGCCCAAGTTCTCCAG 648 cGGCTCTTATTATTGTACTCTATAAA W2 rs10260483 101 ACGTTGGATGAGAAGGAGGTCATTCTAGGC 375 ACGTTGGATGACATGGACTCTAAAGCCACC 649 gggcGGTCATTCTAGGCCATTAATAA W2 rs4533845 102 ACGTTGGATGGGCAGAACAAGGACAGATAG 376 ACGTTGGATGAGTCTAGTAAAAGTTCTGCC 650 atcGGTGGATGTTTCAGGGAAGTAAA W2 rs6556642 103 ACGTTGGATGGCCAGCTTGTCCATTAAAGG 377 ACGTTGGATGCTGGCTTATAAATAAAAGACC 651 cACTTGAAAAATACTTTAGACTTTCTT W2 rs12674093 104 ACGTTGGATGTTTCACAGGGTTAGGATGGG 378 ACGTTGGATGCTAGCAAAGGCTGGATTCTG 652 acatGGAGTTTCCTGTACTTTAAAAAA W2 rs7741525 105 ACGTTGGATGTGGAAGGCAGAGTGATATAC 379 ACGTTGGATGGCTTTCTTCACTCAGAAGGG 653 agagACTGAGACAGGCAGTAGCCTAAT W2 rs2462049 106 ACGTTGGATGGGGAAGGTGTTTGTCTCATA 380 ACGTTGGATGTGGTACAGTTTGAAAGGAGC 654 ggtcCTTTCTGCAGCTCATATTCTGCAA W2 rs11105611 107 ACGTTGGATGAGAAGATATGTTGAGAGGGC 381 ACGTTGGATGTATTCCCTTTCTGGCTGTGG 655 cccctAGAGGGCAGATAAATAGTTAAAT W3 rs2191076 108 ACGTTGGATGGTATGGTGCCTCCACAAAAG 382 ACGTTGGATGCCTCTGGATATATGTCCAGT 656 ACTGTTTGACCCAGG W3 rs163027 109 ACGTTGGATGATGGTGGTGGCAATATTGGG 383 ACGTTGGATGGCCAAAAAGCAGGCTTCTTC 657 TGGGAGGGGGAATAA W3 rs4420719 110 ACGTTGGATGACCATTTATTGGCCCTGCTC 384 ACGTTGGATGATGGCAACATCTGCTTTCCC 658 GGCACCTTAGGTGATG W3 rs2038710 111 ACGTTGGATGAGAATGACAAACCCAAGGGC 385 ACGTTGGATGGGACCTGTGCAAAACTTTGG 659 tAGGGCACGTAGTAGA W3 rs1850422 112 ACGTTGGATGGTAGGTTAAGAGGGAAAGGG 386 ACGTTGGATGACTTGCCTTGTTCTTGACTG 660 AGGGAAAGGGTGAAAA W3 rs1447660 113 ACGTTGGATGAAAGTCAGCACAGTCACTGG 387 ACGTTGGATGTCTCGAACAAGCTAGAGGAC 661 ttAAAGCAACCCCAGGA W3 rs11221268 114 ACGTTGGATGTCGAACTCCTGACCTCAAAC 388 ACGTTGGATGCCTGTAATCCCAGCACTTTG 662 GACCTCAAACAATCCAAT W3 rs4845519 115 ACGTTGGATGGTGTTCATACTGTAGGCTTG 389 ACGTTGGATGTAAACCAACCCCCTTCTTGC 663 cCTGTAGGCTTGAAGAGA W3 rs1514424 116 ACGTTGGATGGTGTAATAGGCTTGTGAGAG 390 ACGTTGGATGCTCTTTGGATTAAATGCCTGC 664 GGCTTGTGAGAGGTAAAT W3 rs2092797 117 ACGTTGGATGTGCTTCATAACTCTGTCACG 391 ACGTTGGATGCAAAACAGTATCGTAACAG 665 tTCTGTCACGTTTCAGTAA W3 rs3902595 118 ACGTTGGATGCAAGTCTCCCTAGCTAAGTG 392 ACGTTGGATGTAGGAAGATCCTGGAAGGTG 666 gTCAGATCAACACCAAGTA W3 rs10276221 119 ACGTTGGATGCATTTGCGGCAAAGAGGGAG 393 ACGTTGGATGAGCTCCCACACATGAAAGAG 667 GGAGCCAGAAGGATATAAT W3 rs11249671 120 ACGTTGGATGCACCCTATGCGACTTCTTTG 394 ACGTTGGATGGTGGAGCTGTTATTCTAGTG 668 tttcCCACCGTCGAGACAAT W3 rs9992168 121 ACGTTGGATGTATCCCCCAAACCTCACATC 395 ACGTTGGATGGAGTGGACTATAGTGGATGC 669 CCAGAGGATGTGTACACTAA W3 rs2937415 122 ACGTTGGATGATCATGGAAGTGATGAGAGG 396 ACGTTGGATGGCCACATTCAACTGCAGTTC 670 GAAGTGATGAGAGGAACTAA W3 rs10421748 123 ACGTTGGATGAGGACCTGGAGCTCAGCAAC 397 ACGTTGGATGCTCAGCTGTCTCCATGCTC 671 ggggTGGGGAGAATGCCAAA W3 rs11227624 124 ACGTTGGATGTGTGCAGCAATGATCACAG 398 ACGTTGGATGCTCAGCCATCTCCTGTCATC 672 AGCAATGATCACAGCTATAAT W3 rs6595267 125 ACGTTGGATGACAAGTAAGGTTGGGTGGTG 399 ACGTTGGATGCCTATTCATGGAACCTCCAC 673 ggaaGTTGGGTGGTGCCTTTG W3 rs614290 126 ACGTTGGATGGGATGCTATATCATAGCCAC 400 ACGTTGGATGCTTCCCCCGCTCTTTTAAAC 674 CCACATACCTTGAAAAAAGAAT W3 rs1536069 127 ACGTTGGATGCTCTGCTCTGCACACATAAG 401 ACGTTGGATGCCCTGAGATTATGTGACACC 675 gctaTGCACACATAAGGAGTAA W3 rs7688917 128 ACGTTGGATGGGTGTTAGTCAACTAGGAGG 402 ACGTTGGATGAGAGCTTGGACTCTAGCATC 676 TAGGAGGTAATGGAGAAATAAT W3 rs4420242 129 ACGTTGGATGAGAGGAAGCAAAGCTAAGGG 403 ACGTTGGATGCCCAGACCACTTTATAAGCC 677 ccctcCAGATCCAGAAACAGGAA W3 rs1432865 130 ACGTTGGATGAGGAGGTGACATTTAAGCTG 404 ACGTTGGATGCTTTGCACTTACTGCTTCCC 678 ggacACTGAATGACAAGAAGGAA W3 rs2821312 131 ACGTTGGATGACGGCTAATGCTCCTCATTC 405 ACGTTGGATGGCATGTTTAGTACCTGCAAG 679 ctccCCTCATTCAACTCAATGTAA W3 rs1910369 132 ACGTTGGATGGGGCTTGAATAGCTAGATAC 406 ACGTTGGATGTTACCTAGCTAGAGATCTGG 680 GCTTGAATAGCTAGATACCCAAAT W3 rs2030926 133 ACGTTGGATGGATAGGGATAGACACAGGAC 407 ACGTTGGATGGTAGTTAAAGGTGAGCAGGG 681 atagcCACAGGACAAGAAACCAAA W3 rs4399565 134 ACGTTGGATGGGATTTCTGTGAAGCTGCTC 408 ACGTTGGATGAAAGTGTTGACCCCAGTGTG 682 tggaTGCTCTAGAGATGAGGACAA W3 rs1367452 135 ACGTTGGATGCCATGAATGGCAAGTGTCTG 409 ACGTTGGATGCTTGGGTTCTGAGGATTTGC 683 cccccCTTCAGGCCAAATCGAGAAT W3 rs2828793 136 ACGTTGGATGTTGGTAGCATATGGGTCTCC 410 ACGTTGGATGCCTTTTCTGATGAATGAAGCC 684 ctGTAGCATATGGGTCTCCTTTTAA W3 rs2427102 137 ACGTTGGATGGCCAGGGATTGTATTCGAAG 411 ACGTTGGATGCTGGATATTGTTCAGCTGGG 685 gggtTCAGGAAGCTCTGGAATCAAT W3 rs10860857 138 ACGTTGGATGCTTCTATGAACCACCAAGGC 412 ACGTTGGATGGGATACAGCCAAACCATGTC 686 ccacaACCAAGGCAAGCGACAAAGTC W3 rs9692857 139 ACGTTGGATGGGTAGGAAACGTGTACACTG 413 ACGTTGGATGATCCATGAAAACAGGATGTC 687 AAACTATAAAGCATTGCTAAAAGAAT W3 rs4762447 140 ACGTTGGATGATGCCTATTTCTTGTGACCC 414 ACGTTGGATGCTATACTGCACCTTAGAACC 688 gggagGGTTTTTTGCCAGTATGTAAA W3 rs1540885 141 ACGTTGGATGATGACATACTCCCATGTGCC 415 ACGTTGGATGGAAGAAGAATCAGAGCCAGC 689 gaagGTGCCCCCCAGGTTTTGAACAAT W3 rs17156383 142 ACGTTGGATGCACGCTATGTAAAAGTAGCA 416 ACGTTGGATGCTTCCAAAGTTCATATGCAG 690 ccAGCTACTGAAAATGAAAATGTATAA W3 rs10278812 143 ACGTTGGATGGAATGGATAGAAGAATCTG 417 ACGTTGGATGACTACCCTGACTGCTATCTC 691 gggcATGGATAGAAGAATCTGTCATAA W3 rs6575809 144 ACGTTGGATGCCTGAGTCAACCTTGGAAAG 418 ACGTTGGATGTAATAGCTCCCCCAACAGTC 692 gGGAAAGATAAGAGAGATATCAGAAAT W3 rs1029176 145 ACGTTGGATGAGCCTGAATCTCTAGCAGTC 419 ACGTTGGATGGAGAGACACTGTCTCACTCA 693 aaggCATAAATATGCTTTCAACTACATG W3 rs3010003 146 ACGTTGGATGCTGCAAGCTAAGAAACACAC 420 ACGTTGGATGCGTACCATATACCTAGGGTG 694 gcttGGTGATTTATGCAGAAAAAGAATA W4 rs2241491 147 ACGTTGGATGCCATTATTTCTCCCAAAGCTC 421 ACGTTGGATGAAATAAGACCCTTGCACCCG 695 CCAAAGCTCTCCCAA W4 rs11635372 148 ACGTTGGATGTTGTGGAAGGAGGCAAGGG 422 ACGTTGGATGATGTCTGTCTTGGCTATGGG 696 TCTGCAGTCTGGCAA W4 rs4952502 149 ACGTTGGATGAGAAGAGATGGTGGTTGTGC 423 ACGTTGGATGACTGTTAGCTAGCACTGTGG 697 TGGTTGTGCAGCCAA W4 rs2063506 150 ACGTTGGATGAGTATCCTCCAGTTTAAGGG 424 ACGTTGGATGGGACTCCCTACTCATTCAAG 698 GCCTCAGGGGAAGGAA W4 rs650616 151 ACGTTGGATGGTTGTTGCTAGTAGACCGAG 425 ACGTTGGATGCTAGTTTTCTCTTCCCCAGC 699 gCCGAGGGGTGGGAAT W4 rs10179379 152 ACGTTGGATGTTTAGTGACACCTCCCATCC 426 ACGTTGGATGGGGTAGTAGGAAGTGGTTAG 700 CCAATCTGTCCGGAAAT W4 rs2657300 153 ACGTTGGATGGGCATGCAACATAGACTTGG 427 ACGTTGGATGTTAGTGAGCATCAGAGGCAG 701 ccTCCTAGACCTGTGCAA W4 rs9886292 154 ACGTTGGATGAGGCTTTCAGGATCTGCTTC 428 ACGTTGGATGCTCAAGGGCCATAGAAACAC 702 ggGCTTCCCTGGGAAGAA W4 rs247852 155 ACGTTGGATGGTGGACACAGGACAGCATTG 429 ACGTTGGATGTCATCGCATCATGCATCCTC 703 aCCTGGAAAGGAAGGAAC W4 rs2517540 156 ACGTTGGATGATGTGTCAAGACCATCTGGG 430 ACGTTGGATGACGGAGCAAGACTCTGTCTC 704 tccaCAGTGGCTCCCAAAC W4 rs1335075 157 ACGTTGGATGAGTTATTCTCCCGAGAAGGC 431 ACGTTGGATGGCTAGGCAGATTGTGCTGTG 705 CCACAATAGGATCTGCAAT W4 rs9630712 158 ACGTTGGATGGACATGGTTGTGTTGTGAAG 432 ACGTTGGATGAAGCACCGCTGGTGATAATG 706 GTGAAGTAAAAGCTGGAAT W4 rs4928169 159 ACGTTGGATGACTATGGGTAGTACATGGG 433 ACGTTGGATGGCATCATTTGAATATTCACAC 707 tGGGGTCAGGTAAGGAATA W4 rs11771935 160 ACGTTGGATGTGCAAGCCCACAGGACAAAC 434 ACGTTGGATGTTCTTGTGGATTCCACTCCG 708 gacAACAAGTACCAGCAGTA W4 rs13255815 161 ACGTTGGATGGTTGGTAATAGCTACAGCCC 435 ACGTTGGATGAGAAGAGCTGACTGTCAGCG 709 ccatCCCTGGTCCCCTGGAAT W4 rs9838013 162 ACGTTGGATGTTTTTGTCCCCAAACATCCC 436 ACGTTGGATGTTTAGTGAGGGTGCTGGAAG 710 ccACTACCATTGAGGTTTCAC W4 rs9599645 163 ACGTTGGATGAGACATCAGAGAGAAGGGAC 437 ACGTTGGATGGTATTAAAGATGAGCCCACAG 711 GGACATACAAATCAGACTAAT W4 rs453609 164 ACGTTGGATGTTGTTCCTGACTTCAAGGGC 438 ACGTTGGATGACCAGTTCCTACCCATGAAG 712 aTTCATAATGAAGCAGGAAAT W4 rs8063107 165 ACGTTGGATGAAGGTGCTGTGGCAAGTTAG 439 ACGTTGGATGCTGCTGTGGGTATTCAGTTC 713 gggaTGGAGGGTTTTTCACAA W4 rs9594249 166 ACGTTGGATGTGGAGAAGAAACTCAAAAG 440 ACGTTGGATGACAGGGTCTGTACATTGCAG 714 cCTCAAAAGTTTAGAACCTGAA W4 rs7828293 167 ACGTTGGATGCCAGGTCTCAACACTGATTG 441 ACGTTGGATGGCCATTATGTGAAATCAGCG 715 gtaaCAAGTAGAGGTGCTGAAT W4 rs7041138 168 ACGTTGGATGGAAATACTTCCCTCGGGCTC 442 ACGTTGGATGAACCGCAGGTAAGGATTCAG 716 TTCAGGCTTTAAATACCTTCAAA W4 rs10818726 169 ACGTTGGATGCTTCCCTGGCTTCATTTTCC 443 ACGTTGGATGCGATCTCCATCAAAAGAGGC 717 CTTCATTTTCCAGGGTTGTTAAT W4 rs1548605 170 ACGTTGGATGAGAGATTGAGCTTCAGTCCC 444 ACGTTGGATGTCAGTCTTGTGTAGATAGGG 718 AGTCCCCTAGTGTAATAGGAAAT W4 rs6139756 171 ACGTTGGATGCCACTTACAGAACAGAAGGG 445 ACGTTGGATGTATACCCATCCCCCAATGAC 719 cccccCAGCAGGCTGCCTTGAAAT W4 rs2126316 172 ACGTTGGATGTGCTGCTGGATTCAGTTTGC 446 ACGTTGGATGGAACACTTTAGGCCAATATCC 720 gggTGCTAGTATTTTGTTGACAAT W4 rs1420562 173 ACGTTGGATGTTGATATGAGCCTCTGAGAC 447 ACGTTGGATGAGCTGAAGTTCGTGAGATCC 721 gagagGAGCCTCTGAGACTGAAAT W4 rs2647415 174 ACGTTGGATGGGACGTGAGCAAGAAAAGAC 448 ACGTTGGATGTGCTACGATTCAGTAATGAG 722 ggGAAAAGACACTATGATGGTAAT W4 rs12607335 175 ACGTTGGATGGTGGTCTATTGAGGCAATGG 449 ACGTTGGATGAGGTTCATTTATGTGGTAGC 723 ccccTCTGACAACAAAAGGAAATAA W4 rs9322744 176 ACGTTGGATGGACCCATGTCTGTCATACTG 450 ACGTTGGATGTGGAGCACTTTTGATGTG 724 AGCATCATTAAAGTATTTAGCCAAT W4 rs9864594 177 ACGTTGGATGTGTCAAAACCCCATCTCTAC 451 ACGTTGGATGGGGCTCAAGTGATTTTCCAG 725 cttaAAAACCCCATCTCTACTAAAAA W4 rs4680921 178 ACGTTGGATGGCCAAGCAACACTATGGTAT 452 ACGTTGGATGAAGACCAAGTGAACTGTGCC 726 gCACCTTTTAGTCTAAGGAGAGAAAT W4 rs4716945 179 ACGTTGGATGAATGCCATTTCCTCAGGAGC 453 ACGTTGGATGGAAGCATCTAAGCACAGCTC 727 gggcAGAATGAGGTGCTCTTTTCAAA W4 rs1543513 180 ACGTTGGATGGACTGGTAGAGTAAGTTCTG 454 ACGTTGGATGATTCCACATTCAGAGACAAC 728 ggggTGTTTAAAGCAGGCAAAATAAA W4 rs7266163 181 ACGTTGGATGGTGTTGATCTGTCACATGGC 455 ACGTTGGATGGAGAACAAATAGCCCTGAAG 729 cttcCACATGGCAATATAAATGACCAA W4 rs9515625 182 ACGTTGGATGGAGGTGCCAGCTAATCTAAC 456 ACGTTGGATGCATGAGGCCACAAAGGAAAG 730 cCCGTGATTTACTAATAAGTATCAAAT W4 rs10953770 183 ACGTTGGATGTATTACATCGAAATCAAGG 457 ACGTTGGATGAGGCAAAATCGTTTTCATCC 731 gACATCGAAATCAAGGTTTATGTTATA W4 rs1070036 184 ACGTTGGATGGAAGTGTTTAGGATTTGAG 458 ACGTTGGATGTGCTCACTGGAGCATTTCAG 732 cctcATACTTAGGTTGATTATCCCTAAT W4 rs10822434 185 ACGTTGGATGAAGTCTTGACATAAGGTAG 459 ACGTTGGATGGGCAATCTTAAAGAGGGTTG 733 ttacGTCTTGACATAAGGTAGTATAAAT W4 rs4953843 186 ACGTTGGATGCAAAAGCTTTGCGCATCAGG 460 ACGTTGGATGACAGGACCCTTGCTTTCAAC 734 aggcgCAAAATCTAAAGCAGAGATAAAT W5 rs2804649 187 ACGTTGGATGTTAGGCCAAGCTCATGCTTC 461 ACGTTGGATGAATCTGGCCAGGGAAGGTTG 735 TCTTTCCAGGCCCAA W5 rs7323716 188 ACGTTGGATGCAGTGGATTTCAAATCCGGC 462 ACGTTGGATGTGTTCAGAGGGTGTTGGATG 736 GCCGCACATCAGAAT W5 rs10785736 189 ACGTTGGATGCAATCAGCTACTGCTGATCC 463 ACGTTGGATGTGGTTTGGTTTCTCAGCTGG 737 TGATCCACTGGCTCAA W5 rs7831906 190 ACGTTGGATGCTGTCAAAAGCCAGGCTAAG 464 ACGTTGGATGGAGGTTCAAAGAGTATAAAG 738 CCAGGCTAAGGCAAAT W5 rs2928668 191 ACGTTGGATGGCAACCAGTTATCCCCATTC 465 ACGTTGGATGGTACTTTGTGACCTTGAGGC 739 cTCCCCATTCCACAAAT W5 rs12903747 192 ACGTTGGATGGCTTGCAGAGGTTCACTAAC 466 ACGTTGGATGTGAGGCCATTAAAAGCAGGG 740 gATACAGCTTGGCCAAT W5 rs4869315 193 ACGTTGGATGTAGAGCTCACAGAGCACTTC 467 ACGTTGGATGAGCACTTAACTGAGTCTGGG 741 GCACTTCCCTACAAACAA W5 rs6542638 194 ACGTTGGATGCTCAGTTTAAAGTCACTGCC 468 ACGTTGGATGTAACCCTGCAAAGACTAGAG 742 cCACTGCCAGTGACCTAA W5 rs686851 195 ACGTTGGATGTTTACAGACTAGCGTGACGG 469 ACGTTGGATGATCTCACGATCCCCCATTTC 743 cGACGGACCCAATCTAAT W5 rs9987005 196 ACGTTGGATGGGAGGATGAAATCAGTGGTC 470 ACGTTGGATGAGAACATGCCAGAAAGTGCC 744 GGTGTTGCCTGTTATTGA W5 rs10030074 197 ACGTTGGATGTTTTTCTGTCTCAGCCTCCC 471 ACGTTGGATGATGGAGAAACCTGTCTCTAC 745 ggaaACCAGGCCAGGCTAA W5 rs1346718 198 ACGTTGGATGTATGGATGCAAGCCTTTCCC 472 ACGTTGGATGAGGCTGAAGAATGCTTTCCC 746 GACTATCCTCTTCAGACCAA W5 rs2007475 199 ACGTTGGATGAGCTTGGGCTGAATGTTAGG 473 ACGTTGGATGTAAAAGCAAAACAGCTTCCC 747 ctAGCGTTTCACGTTCAAAA W5 rs10110766 200 ACGTTGGATGGGCTCTAGTTTTCAGCAGAC 474 ACGTTGGATGCTCAAAACCTGGCTACCTTG 748 gCCTGGGAGAAAGAAAACAA W5 rs11099210 201 ACGTTGGATGGTTACACTGACAATCAAGGG 475 ACGTTGGATGACTCTCATGTACCCTCTCTG 749 cGAGGAGGGCAGAGAAGAAT W5 rs4130306 202 ACGTTGGATGAACTGATGGCTCGTACTACC 476 ACGTTGGATGGCTCTTTTCCCTATGATGTG 750 tGTACTACCCAGTGGAATAAA W5 rs1401454 203 ACGTTGGATGGATAATATTGTGCTGCATGCT 477 ACGTTGGATGACCTTGTTCTGTGTGTGTGG 751 gggtTGCTGCATGCTGTAAAT W5 rs179596 204 ACGTTGGATGCTGGATCTTACCTCCATAGC 478 ACGTTGGATGACTAGAATCGTGCAGAGAAC 752 agCTTACCTCCATAGCATCTAA W5 rs9787011 205 ACGTTGGATGGAGCACTTATCACAGGTCAG 479 ACGTTGGATGGAAGGTGGGATAAACAAGGG 753 gtaatTGCCCCTTCAAGTGAAT W5 rs9989393 206 ACGTTGGATGACTGAAGCATAACGCCTCTG 480 ACGTTGGATGGGTGCCCAAACATGTTATGC 754 gaCTCTGGGACTACTAAGAAGA W5 rs664358 207 ACGTTGGATGATCTTCATGTCCCAAGGAGG 481 ACGTTGGATGCCAAGTTTATGAAACGTAG 755 ggatGGAAAAGCTGAAAAGGAA W5 rs7737946 208 ACGTTGGATGTCACGTCAGACTACACTGAG 482 ACGTTGGATGGGATTATAGGCATGAGCCAC 756 tcagcCTACACTGAGCTACCACA W5 rs1342995 209 ACGTTGGATGCATTGCTTGGGTCTTCTCAG 483 ACGTTGGATGGGGTTCTGGCAGATATATCC 757 cccccCCTTCCATGGGACTCATTA W5 rs4311632 210 ACGTTGGATGGGTTTATTGGAAATGAAGTC 484 ACGTTGGATGGATCCTACTTACTTCCAGTC 758 tcTTTAAAGTGCTACATCTATGAA W5 rs13269702 211 ACGTTGGATGAAGAATGGAAAGTGATGAG 485 ACGTTGGATGCTAGGCTTGTTCACTATTTG 759 cGTGATGAGATTTCTATCATACAA W5 rs2993531 212 ACGTTGGATGCACTGAGAGATACAGGAAAG 486 ACGTTGGATGCTTGTTTCCCCAACATAAGG 760 agcGAGATACAGGAAAGTGTAAAT W5 rs1372688 213 ACGTTGGATGGCTTGTTAAATGTGTGTTCC 487 ACGTTGGATGTCCCTCAGTTTAGTTTTGTC 761 tttcAAATGTGTGTTCCATCATCTA W5 rs1720839 214 ACGTTGGATGGATGATGAAAGCATAAGTC 488 ACGTTGGATGGAGATGTTGCAAAGATGCAAG 762 ATGATGAAAGCATAAGTCTTTTAAT W5 rs6582294 215 ACGTTGGATGAGTGAGACTTAACCGTGGAG 489 ACGTTGGATGCACCCCCACATTAGCAAAAG 763 aaatTGAACTGTAGCAAGAAACAAA W5 rs10234234 216 ACGTTGGATGCTTCTTTTCCCTGCATCATC 490 ACGTTGGATGAGGGAAGTGTTGTAGCATGG 764 catccGTTTTTCCCTCTTGACTGAAT W5 rs11221881 217 ACGTTGGATGCTGCCTATTCTTCTACGGTC 491 ACGTTGGATGCAGAAACATGCTTGTAGCAG 765 gtcgTCTACGGTCTTTTTCTTATCAA W5 rs494220 218 ACGTTGGATGCTTTGCTCACAAGAAAGTTGG 492 ACGTTGGATGCCCCCAAGGCAATGATTTTC 766 TTGGAACTATCGTTCAAAAAGTATTA W5 rs9428474 219 ACGTTGGATGTGGAGGCCACTGGATTAAAG 493 ACGTTGGATGAGACACAGCTAGCACTTTCC 767 ggTTAAAGGAGACAATGTATGTAAAT W5 rs7294836 220 ACGTTGGATGACTCCCTACCTATCTCTTTG 494 ACGTTGGATGTCCACAGCCACTGAATAGTC 768 gtcgCTTTGAAAAGCCTTAACCATTAA W5 rs614004 221 ACGTTGGATGTGTTACAGCAGCTAGTGTTG 495 ACGTTGGATGCCTCTAATAGCACCCAGTTC 769 tcGCTAGTGTTGCACTAATAAAAAAAT W5 rs2304748 222 ACGTTGGATGCACCAGTCCCCTCAAATAAC 496 ACGTTGGATGGCAGTTCTTAAAGACCTCGG 770 acaAGTCCCCTCAAATAACCTATCAAAT W5 rs2435556 223 ACGTTGGATGCCCTAGGATTTTCAGAATGG 497 ACGTTGGATGGGCTGACTCATTTGTTAGGG 771 cacTGGTTTCAACTTAAAATCGCCAAAT W5 rs550408 224 ACGTTGGATGGTGCTTAGGAAATGTTTGTTG 498 ACGTTGGATGCGTGAATACATGAGAAAGGC 772 AATGAAAGAGATATAATCATCTTAAAAA W5 rs7818415 225 ACGTTGGATGGAGGAGTTATAAGACCTAGAG 499 ACGTTGGATGACCATATCACAGTTGTTGGG 773 tgaagGAGAGCTTAACTAAAATAAACAA W6 rs6488494 226 ACGTTGGATGTATCCATCCTTCAGACACCC 500 ACGTTGGATGATGGGACAGTAACTGCAGAC 774 AGACACCCAGGCCAA W6 rs10840805 227 ACGTTGGATGCCTACCTTGCTCTGAGAAAC 501 ACGTTGGATGCTTCCTGCTTTTAAGCAGTC 775 AGCCTGCACTGTGAA W6 rs11773909 228 ACGTTGGATGTTTTTGGAAATGGCCCAAGG 502 ACGTTGGATGGAAACAAGTAAATGAGGTCC 776 TGGCCCAAGGAGAAAT W6 rs4764597 229 ACGTTGGATGAGATCCTCCAGCTCATCTTC 503 ACGTTGGATGTAATCCTTGGAGGCTCTCTG 777 GCTCATCTTCCTCTGAA W6 rs2820107 230 ACGTTGGATGAGATTGGTCCCTCACAATGG 504 ACGTTGGATGATTTGGCCCTGAGGCTTATC 778 AGTCTTTCTGAGCCCAA W6 rs13331222 231 ACGTTGGATGGGAATACATGTGGGTATGTG 505 ACGTTGGATGATATACGTTGCTTCCTTTGG 779 GAGAGCCATGAGTGAAA W6 rs12675087 232 ACGTTGGATGAGCCACCAAAACCAAGCTTC 506 ACGTTGGATGCTTGTAAGGCAGGTCTGATG 780 tgAGCAAGTGCTGAGGG W6 rs725849 233 ACGTTGGATGTTGTGTGCTATCTTACACTG 507 ACGTTGGATGACTAGTTGGAATGGGCTTGG 781 cGTAGCTTCCTAGCCAAA W6 rs910500 234 ACGTTGGATGACTGATACCCTACAGTGTGC 508 ACGTTGGATGGTGCTCAGAGCACTTAAACG 782 TGGATATGACTTGCCCAA W6 rs1916803 235 ACGTTGGATGTTGACTCACCCACTTCTGTC 509 ACGTTGGATGTGTTGATGAGGTGAAGAGGG 783 ACTTCTGTCTCAGTATCCA W6 rs6431221 236 ACGTTGGATGTTCAATCAGTCATGCCTGTG 510 ACGTTGGATGCTAATCTGAAGGCTCCACTG 784 cccTGCCTGTGTGATGAAA W6 rs4488809 237 ACGTTGGATGGCAAGCATCTGCTCTTGAGG 511 ACGTTGGATGCTGTGTAAAAGAGTTTGAGG 785 cgGCTCTTGAGGCAGTAAA W6 rs3816551 238 ACGTTGGATGGGTGGAGATGGGATTCTCTG 512 ACGTTGGATGAACCCAGTCTACACACACAG 786 GGGATTCTCTGGTTGTAAA W6 rs7205009 239 ACGTTGGATGGTATCTCCCACTCTTGTACC 513 ACGTTGGATGCTGGAATACAACATTTCTGG 787 cCTCTTGTACCCCAGAAAAA W6 rs2322301 240 ACGTTGGATGTTTTTCCTCCTGTACCCTGC 514 ACGTTGGATGTACATGTGGTTAGAGTCTGG 788 aaaTGCAATCTGTCTGGAAA W6 rs17074340 241 ACGTTGGATGAAATGCTACTCCAACAGAGG 515 ACGTTGGATGCTTCATTATCCCCACTGCTG 789 GGAGGTGACATAAGTAAGTA W6 rs9356029 242 ACGTTGGATGATCCTGGGCTTTCCTTTGTC 516 ACGTTGGATGGAGTCTAGTGGACAAGAGAG 790 acTTGTCACACCTCTTCAAAT W6 rs10898954 243 ACGTTGGATGAGTGCAACAGAAAAGGCAGG 517 ACGTTGGATGGGTCCTTGGTATGTGTTCTC 791 CAAGTCTTCTATCAAGGGAAT W6 rs263025 244 ACGTTGGATGGCATTATGCTAAAGGCTGTC 518 ACGTTGGATGTCCTCTGATTTAGGCCCTTC 792 GGCTGTCACAGATTTATAAAA W6 rs273172 245 ACGTTGGATGCTATGTTTTCCCCCAGCTTG 519 ACGTTGGATGGCAAAAGAACAACCACCCAG 793 acttTGCTAGGTCTTACATGAA W6 rs9652080 246 ACGTTGGATGGTTTGGTGACTATAGAAACAG 520 ACGTTGGATGCAGTTTAAAGTCATATTCAC 794 gaagGTGTTGCCAAAAGCTAAT W6 rs2451984 247 ACGTTGGATGAACAATAGAGACACACTCCG 521 ACGTTGGATGTTTAATCCAGGGAGCTCTTC 795 ccctcGACACACTCCGGCTAAAT W6 rs11655850 248 ACGTTGGATGCACCACTCAGGAAAGCAAAC 522 ACGTTGGATGAAAATCCCAGTGAAGAGCAG 796 cccaAGGAAAGCAAACTGCTACA W6 rs7084321 249 ACGTTGGATGACAGAAGCACCACAGCTGAG 523 ACGTTGGATGAGGTTTCCCAAGCTAGACCC 797 ttgacAAGACGCAGCTGTGCAAT W6 rs7356482 250 ACGTTGGATGCATCAGCAATATAATGCCGC 524 ACGTTGGATGTGTGGATCACTGTTCACAGG 798 CAATCCTTTATCTCTCTCTAATAC W6 rs9818611 251 ACGTTGGATGGTTCTGGATGTTGGCCATTC 525 ACGTTGGATGCCACATCATATGCATCTGGG 799 GTGCTATCTCATTGTTGTTTGAAA W6 rs7320201 252 ACGTTGGATGTCATGTAACCAAGCACCACC 526 ACGTTGGATGGCTCATTTATAGAAGCAGTC 800 cccccCCCCAAAAACCTACTGAAAT W6 rs3913810 253 ACGTTGGATGTTACGACCCAATCACCTTGC 527 ACGTTGGATGTGTGTCCCCAACCACATTTC 801 tCCTCCTCAAACATTAAGGACAAAA W6 rs12450474 254 ACGTTGGATGCCTTCTGCTCAACTACCAAG 528 ACGTTGGATGGCCAAAGACGATGTGGAATG 802 attaTGCTCAACTACCAAGTTAAGA W6 rs1503660 255 ACGTTGGATGCCAGTCAAGGAAGCAGTTTC 529 ACGTTGGATGGTCTGATTAGGCCTAAGAGC 803 cCAGTTTCAATAACAGATAGTAAAT W6 rs683262 256 ACGTTGGATGAGGATGCCTGTTGGGTTTTC 530 ACGTTGGATGATCAGACTTTTCCCAGGCAG 804 gTACTGAGATTGACAAGTCATTAAA W6 rs1041409 257 ACGTTGGATGAAGCAGGTACTTACTATGGG 531 ACGTTGGATGGTACTGTTAGTGTGTCACTC 805 cgggACTTACTATGGGGAATAGAATAAAT W6 rs2984523 258 ACGTTGGATGCTGAGGCACAAGGAGATAAG 532 ACGTTGGATGACTGACCTGGGTTTGACTTC 806 AAGGAGATAAGTAACATGTTTA W6 rs10754776 259 ACGTTGGATGTTGCCTAGCCTTACATCCTG 533 ACGTTGGATGCTCAAAATAGATGATGGACTG 807 caccTCCTGAATACTTTCTCATATAGA W6 rs2734574 260 ACGTTGGATGGACCTTCCTGTTCCTAGATG 534 ACGTTGGATGTGACTGGACTGTGACATAGC 808 acgTTCCTGTTCCTAGATGATCAAAAT W6 rs9285190 261 ACGTTGGATGAATCTTGGAGCCTTGGAGAC 535 ACGTTGGATGGTGCTTCTCACAAAAGCCTG 809 gTAGTTTCTTTAGCTCTTGAATAAAAT W6 rs331893 262 ACGTTGGATGATCCATCTCTGTCAGAGTTC 536 ACGTTGGATGAGAGAACTGACCCTTCACTG 810 aggTCTCAAATAAAAATGCAAAGGAAA W6 rs10806232 263 ACGTTGGATGGAGAGAGGGAGAAAGTAGAG 537 ACGTTGGATGCCCTTACTCAGTGATTCCTC 811 ggagGGTGGTTAGAGAACTCAATGAAT W6 rs12107918 264 ACGTTGGATGTTTAATAGGGAAAGTATTGG 538 ACGTTGGATGCACACCCAGAAGCACTGATA 812 aaatcTAAATAGCCAAGAAAACAGCCAA W6 rs1593443 265 ACGTTGGATGTACCATGCTCATTGAACTCG 539 ACGTTGGATGGGAGATTTGATAGGAAGTGC 813 aaAAAACTCAATATAGTAAAGGTATCAA W7 rs1912619 266 ACGTTGGATGGCCCATCCTTCACTAACTTG 540 ACGTTGGATGAACAGTGGTGGCCCATCAGT 814 CACCCTCAGGAGGAA W7 rs1470207 267 ACGTTGGATGCTGCCAGGGAATAGGAGATG 541 ACGTTGGATGCGCTGAAAGAGACACTGAAG 815 GGGTGGCATCGGAAA W7 rs7725509 268 ACGTTGGATGTTACAGTTGAGAGCCACTGC 542 ACGTTGGATGTGCCATTCATTGCTCTACAC 816 CACCGAGCTTGCAATA W7 rs2792780 269 ACGTTGGATGAAGTCATTTGAGGCCCATCC 543 ACGTTGGATGCACTTCCAGCTGCTGCTTTC 817 gCCATCCTGGCTGAAA W7 rs6592545 270 ACGTTGGATGTCTAGGTTGAGACTCAGGTG 544 ACGTTGGATGGGTTTAAGCAACATGAAAGC 818 cTGGCTGGACTGGGGA W7 rs6019378 271 ACGTTGGATGTACGACCAGAATGGAAGGAG 545 ACGTTGGATGATTGAACCCTGGGAAGGTGG 819 cGAAGGAGGGCTTGGAA W7 rs313937 272 ACGTTGGATGACTTAACCCCCAGTGTGATG 546 ACGTTGGATGCACTTATCCCATTCACGAGG 820 GTGATGGTGTTAGGGAA W7 rs10851704 273 ACGTTGGATGACTCTCACACAAAGTTTGCC 547 ACGTTGGATGCGGTATTGTCTTAAGACTGA 821 CAAAGTTTGCCTGACAAA W7 rs6929257 274 ACGTTGGATGGTCAGAGATTTCTGCCTAAG 548 ACGTTGGATGCATCTGCCATGATGATCCTG 822 TCTGCCTAAGGTGTTAAA W7 rs11082446 275 ACGTTGGATGACCCAGGTGACCGAATAAAG 549 ACGTTGGATGGTAGCTACGTTCTTTGGAGG 823 TGGTATAGGTTTTGGGAA W7 rs4815732 276 ACGTTGGATGGAGCTTCTATGAAACGTGTG 550 ACGTTGGATGGGTTTCTGCCAAAAACCTTG 824 cACGTGAAAACATGTTGAA W7 rs10795112 277 ACGTTGGATGCAGTCTATCTCTTGCTCTAC 551 ACGTTGGATGGAAGACCATTATGTTTCTGAC 825 TGCTCTACAATCACCTTAAT W7 rs1054067 278 ACGTTGGATGCAGCAGCCTTTGAAAGACAC 552 ACGTTGGATGTCAGCAGCTTACGGTTTCAG 826 ccTCAAACAAACAACAGACA W7 rs3902451 279 ACGTTGGATGCTGGTTCTGTGAAATAAGAC 553 ACGTTGGATGTGGTGTCTTTACCTCTTTAC 827 ATGAACAAAACCTTTGAGAA W7 rs9352730 280 ACGTTGGATGGGTCACTAGTGTATATTTTG 554 ACGTTGGATGGACTCCCAACACACAATACC 828 AAGGGATAGTTGTAGTATGA W7 rs2207800 281 ACGTTGGATGCAAAAGAAGCTGGATTGCTC 555 ACGTTGGATGCCAAGAAAGGCAATGTTGGG 829 ctCTGGATTGCTCTACTGGAA W7 rs1870836 282 ACGTTGGATGGAGGAGAAGGTGATGTGAAG 556 ACGTTGGATGCCCTGGAGTTCCTTTTCTTG 830 ATGTGAAGATGGAGGTAGAAA W7 rs264039 283 ACGTTGGATGATCCCTCATTCTTTCTCCAC 557 ACGTTGGATGGAGAAGCTGAGGAAGCAAAG 831 CATTCTTTCTCCACTAGATAAA W7 rs2826737 284 ACGTTGGATGATGCTAAGGATTCTGGGGTC 558 ACGTTGGATGCATATGCTAAGAGCCAGGAC 832 cttGGGTCAGACAGATTTGAAT W7 rs9554894 285 ACGTTGGATGGGGCATGACACAACTCAAAC 559 ACGTTGGATGACCTGAGTTTTCAGCCGTTG 833 ctgcCACAACTCAAACTTTGGAA W7 rs12034424 286 ACGTTGGATGAACAGAGGGTTTAACAGCAC 560 ACGTTGGATGACCTTACTCAGTTCTATTC 834 TCAGATATGTTCAGTCAATGAAT W7 rs10880400 287 ACGTTGGATGCCAATATTTTTTCCCTAGGT 561 ACGTTGGATGTGTGCATTAAATCCTCCCCC 835 ggggCCCTAGGTACAAAGGGCTA W7 rs9314663 288 ACGTTGGATGTAAGCTCCCCCATCCAAGAC 562 ACGTTGGATGCACAGGTCTACCTTGATTTC 836 cccctCCATCCAAGACACTGGAAA W7 rs7769867 289 ACGTTGGATGTATCTGGGTCATTGTAAGGC 563 ACGTTGGATGTTCCCAAACATAATCACAG 837 gCATTGTAAGGCAAATGTAATAAA W7 rs2522215 290 ACGTTGGATGAGGGCACAAAGACATCAAAG 564 ACGTTGGATGGGCATAGCGCCTGTGCTTAA 838 gCATGCAAATCTTTCACATTAATAA W7 rs10777944 291 ACGTTGGATGGGCAGGCACTCTATCAATAC 565 ACGTTGGATGTGTTTGTTGCTGCGTGCTTC 839 cagtCACTCTATCAATACAGGAATG W7 rs2373814 292 ACGTTGGATGAGGGTATAGGAAACAGCTTC 566 ACGTTGGATGATCCTCTCTCCTAACACCAG 840 ttcgTGTAAACAAGAGAAATCATGG W7 rs6941784 293 ACGTTGGATGCATTTACCCACAAAGGTAAG 567 ACGTTGGATGTAGTCCCTGACATTGGAGAG 841 GGAATGAAGAGATTAAAATAGATAA W7 rs1597205 294 ACGTTGGATGGATGCAGAATAAGCATTTGAC 568 ACGTTGGATGGAGGCACTTTTTTCTGTTCC 842 acTAAGCATTTGACAAAATCTGATAT W7 rs11727770 295 ACGTTGGATGCTGTCTCAAGTGTCTGGTTC 569 ACGTTGGATGATCCATCCACCCATCCATTG 843 ggCTGGTTCATAGTTAAAAGTCAATA W7 rs4678766 296 ACGTTGGATGGTCCTAAGTTAAAAGAATGG 570 ACGTTGGATGCTCATGCCGACAAAACTTCC 844 CAAAGAAAAAGTAGATTTGTGAAAAA W7 rs3128688 297 ACGTTGGATGATCAAGAGGAAAATGGACAG 571 ACGTTGGATGGATTTACTCAACTCTCTGGG 845 taatAGGAAAATGGACAGAAGTTGAA W7 rs2168524 298 ACGTTGGATGTCTCCCCACTTTGTTCTGAG 572 ACGTTGGATGTCAACTAAAGGGCAGTAACC 846 TCAGCTACTCTGGTATTTAAAATAAAT W7 rs11125229 299 ACGTTGGATGACTGTGCCTGGACAAAGAAG 573 ACGTTGGATGTAGCACCAGGCTTACTAGAC 847 gggaACAAAGAAGACCTGAAGTACACA W7 rs6005754 300 ACGTTGGATGGACAGTTTTTAAATCTTTTAC 574 ACGTTGGATGCTGTATTCCCATACTACTTG 848 TTTTTAAATCTTTTACATCAATAACTAA W7 rs6962207 301 ACGTTGGATGTGAGTGATAGGTCCTCTCTG 575 ACGTTGGATGAGCTCACAAAACTAACACAC 849 GTCATTTTTTAAAATGGAAATCAATAAA W7 rs12442455 302 ACGTTGGATGCAAAAGAACCTGGCTCATGG 576 ACGTTGGATGATATGTCACGCATAGCCCAG 850 aaggcAGTCAGTGGATTATCCTTGGAAT

TABLE 11B SEQ ID SNP_ID NO: Corresponding Genomic Sequence with Alleles provided in Brackets rs12007 851 AATTTTAATCTTTGGTCTCTAAAAAGTAAATTTCAAATTTATGAGTTTAATCACTTCAAATATGAATAGCAAAAAATGAGAGCTTGCTTACTTCTAAAAA[T/C]TGAGGTTAAGATATAGCTAGTG TCTGAACGACACTCCTTAAAGTAAGTTCCAAATGTAAAACACTCCTTAAGTTCCAAATGTTTTCCGCTAATAGTCTGT rs691 852 TACATGCATTCTTTTAGTGGATAGATGCACACAAACACACAAGCCATTATGGGGAAGGATCCACGTGTGTGGCCATATTGTAACACATTTTTCTGCAAAT[C/T]ACCTCTTTCATTTAACA GCCCTTATTCAATGGCCTTTTTCTTTTTCAGTAGTACATACACATCTGTGTCATTTGTTGAATGACGACATGAATGTTTTGTA rs163027 853 GTGAATCATGAAGTCATATCATCACTGTATTACAAAAGCCAAAAAGCAGGCTTCTTCATCTATCTTAGACTCACTGTGGTAGATCACAAACTGGCCACAA[A/G]TTATTCCCCCTCCCAATATTG CCACCACCATTAGCAATAGGACTTAGTTACTTCTACCATGAGAGGTCAAGTTTATTTACCCACTCACTGAATTTGTGCC rs179596 854 AGAAGCACTAACCTAAACCAGTGGTTCTCAACTGGGCTGAATACTAGAATCGTGCAGAGAACTTTAAAAAATAGAGATGCCCAGGCTGAACCCCAAACCA[A/G]TTAGATGCTATGGAGG TAAGATCCAGACATTAGTCATTTTTAAGGCTCCCCAGGTTATTCTAACGCAAAAAAAAGAAAGTTGCCCTAAACCAGCTTTTTA rs166576 855 AAGTGATAATATTGCTATTACCTCCTGCATGCTGGATCTGTTTGCAGCCGTATTGCATGCCTTATTAGCTCTCACTTGTGTTTAAACATGGTCGCCAAAA[A/T]TCAGAGCCTTATGTTTGAT GCCTTTCTCATGAGATGTAGGCCCACACATCCAACAGCCTGCTAGATATTGCCAATTGCATATCCTACACCTATATATGGT rs302137 856 GATCAGTGATACTGAGCTTTTTTTCATATGCTTGTTGGCCACATGTGTGTCTTCTTTTGAAAAGTGTCTGTTCATGTCCTTTGCCCATGTTTTAATGGAA[C/T]TGACAAACCACAATCTTGA TTGCTTAATACAATAAAGGATTATTTCTCACCATGTCACCATCCAGTTTGAGTTAGTATTCGTGGTAAGGGGACAGGTGTT rs264039 857 TAGCCACAGCCATACAGGATAATTGCCCCATAATCTTTCACACCTCCAAGTTTTGGACAATCTAACAGAAAGATCCCTCATTCTTTCTCCACTAGATAAA[T/C]TCATTAATCCTTC AAGTCCCCTCTCACTTGTCATTTTTCTTTGCTTCCTCAGCTTCTCCATTAAGCTTTGTTTTTGCTTGTACATCCATTTCTTCCTACC rs247852 858 CACCGGACTGGGAGCCACTGCGGGGCAGGAAGCTGCCTTTTCCATTTCCCAAGACCGGAATCAATCACAGCGGCTCATCGCATCATGCATCCTCTGCAAT[G/T]GTTCCTTCC TTTCCAGGGAGGTTGGTCACGGCCAATGCTGTCCTGTGTCCACCAGGTGGCGCTCGCGATCACCGCAAAACACATGGCTACCGTGATGGTT rs331893 859 AATGATAAAATGTTTCGTTCTTTGGAAGTAACTCTTTTTTTTTCTTCTGTTCTTAGTCATCCATCTCTGTCAGAGTTCTCAAATAAAAATGCAAAGGAAA[G/T]TTAGCACCACTC TAAAACAGTGAAGGGTCAGTTCTCTGCTTTTGGATATGTAATTTGAATGGGAAGTGTCCTAATGACAATTAAACACAATTTTCTAAGC rs230526 860 CTAAACTCTTCAGCAGATTACTCTCCACACATGCATAGCATGAGAGGTTCCATGGGCTTAGGTACCTGGCTTTTTAGCCATATCTTAGTGTACAAATATC[G/A]ATTAATACCATTTTTCGTAGTA AGATTACGGGAAAAGTGATTCTTGTTTACAGAGCCCTCTTTCAGTTTCATGTTTTTCTTCTCTCATTTAGTAGACATA rs299080 861 CTTTGAACCTGAGTGACTATTCCCACCTGATTCTTTTCTTTCTCTCCTTTCTTTTCCTCCCCAACATACGTTTATCGTCTCTTGCATTAGTGAATGGAAT[C/T; T/C]CGTATTCTTTCATGTAG AGAGCAACATCTTCCTACATAGTAAATAAAAGAGTAAAGACCACTGTATTGAGATGAGAAATCAAGGGAAGAAAGCAACCCAA rs299080 862 CTTTGAACCTGAGTGACTATTCCCACCTGATTCTTTTCTTTCTCTCCTTTCTTTTCCTCCCCAACATACGTTTATCGTCTCTTGCATTAGTGAATGGAAT[C/T; T/C]CGTATTCTTTCATGTAG AGAGCAACATCTTCCTACATAGTAAATAAAAGAGTAAAGACCACTGTATTGAGATGAGAAATCAAGGGAAGAAAGCAACCCAA rs273172 863 TCAATAATGTCTGAAGAGCTTGTAAAGAGATAAGTGAAAACCCTTGTAAGTATTTAGTTTCTTCTCAAACGCAAAAGAACAACCACCCAGGGCCCTTTTA[G/A]TTCATGTAAGACCTAGCAC ATGGAAATCTAGCAAGCTGGGGGAAAACATAGAGGCAGGAAATTCTGTGGCTTCTCTCAGAAGACAAGGATCGAATCCTTC rs263025 864 GCCCTGAAAGGATGGTAGATAGGCCACATCTGCTTTTCTTTCGGAGGAAACAAATATTATTTTATTGCATTATGCTAAAGGCTGTCACAGATTTATAAAA[T/C]TGTAGCAAAGTGCCTGAGG ACATGAAGGGCCTAAATCAGAGGAATAGTAGATGAAACTTCACAGGAATATATCAGACAACATAGGCGTCTTTAGAGAAAA rs309564 865 CTGAGTTTGACTCAGTCTCTGGAAATTTGCTGCATAAGTCTGGGCCCTGACCACCAATATCTGTCTCCTCATCCCTGCAATACTTTCTACTTGGACCCAA[C/T]TTCCACATGCTTGAATGT GGAAAAAAACGCTTTAGAGAAAAAGCAAGGGGAAATGTGGAGCTCACTTTGTATGTTTTGCTTCTCTCAAGGGTTACAGCAC rs269882 866 CTAGAAATAATGCCCTCTGGCCACTGCCCCAGTGCATTCTTATAGTGCACGCTGATAAATCATAGTAAAAATATATCCTCCCTTTTGAAACTTGCCTACA[G/A]TTCTTATCATTGAAGTTT TATGTCCTTGGATATAGAAGGTATTTTCATTTTCACCAACTCTGTAAAAAAAAAAACTACTTCTGGATTATATAAATACTAT rs313937 867 AGTTTAAGTAATATTTCAGAATGACACTGCTATGGCTTGAATATTTGTGTCCTCCAAAATCATGTTGAAACTTAACCCCCAGTGTGATGGTGTTAGGGAA[C/T]TGGGCCTTTAGGAGGTGAT TAAGTCACGAGGGTAGAGCCCTCGTGAATGGGATAAGTGGCCTTATAAAAGGGGTGGAGGGAACTAGGTAGGCCCTTTTTG rs664358 868 TTATAACACCTCCTTAACAGGTGTTTCACCTGATGCCCTGAGATGAAGTGCATTATCTTCATGTCCCAAGGAGGACATGGAGGGAAAAGCTGAAAAGGAA[C/T]TGTATTATGAAACTACGTT TCATAAACTTGGTAATACTACATTTTACAATATATGATATAACTACTGCTGATTAACCTGGAAAATGTTCATTTACTTTCC rs550408 869 TTTTTAATGTGAAATGCTTGGCACAGTTCCTGGCTCAGAGTTAGTGCTTAGGAAATGTTTGTTGAATGAAGAAATGAAAGAGATATAATCATCTTAAAAA[T/C]TGTATTGAGTACTTATTAT GAAGCCTTTCTCATGTATTCACGTATTTTAACTTCACAGTGACACCAAGAGGGGTACTTTTATTATCCCCCTTTAAAGACA rs614290 870 TGGTTAAGACCTTGATTAAAAGTAGATTGATTTATTCTGTCAGTAGTTTAGACCTTCCCCCGCTCTTTTAAACATTTGTTTATGGATATTGACACTTACC[G/A]ATTCTTTTTTCAAGG TATGTGGCTATGATATAGCATCCCCTAACGCAGGTCCGCTCTTCAGAGTTCCGATCACTGCAGTTATAGCAGCAAAGTAAGTAAC rs686851 871 AGGAAGGAGGCTATACATATAGAAAAAATTTTACACCAGTGTGACAGAATTAGAATCCTCAAAGGGCTTTTACAGACTAGCGTGACGGACCCAATCTAAT[C/T]TGTTGTCTA GGTCTCAGTTTTCTCAGCTGTGAAATGGGGGATCGTGAGATTATCATTCCCATAGGATTGCTGTGGAGATTCAATAAAATAATGGATTAAA rs614004 872 TCCATTTCATTTGTACTCAGAGGTAACTAATCTTCATCTCCATTATAACTCCTCTAATAGCACCCAGTTCTTTTCATTCACAGTGTTTCTCATAGTTTTA[G/A]ATTTTTTTATTA GTGCAACACTAGCTGCTGTAACAAATAACTCTCAAATGTTACTGGTTTGACACGATAGCTTTCTCCCTCAGCCATTTAGGAACCCCAG rs558692 873 GCCAATATCTGGTCTCTAAAGACTTTGTCCAATAACTTTCTAAGTCCGTTCCCTTGAATATGTAGATTTGCCTGACTCAGTCAAAAATGTCATCAATCAG[C/A]ATTTTCAGTAAA TAATAGTGTAGAGCTTGTTCCCTGAGCCGCAGTGAATGATTGTCCCAACACATGGTGTTCTGAATTATTAGATGAGTAGGAAAGAGTC rs474077 874 TTAAATAAGAAAGAATAATATGTGACATAGGCCATATGTGGCTCACAAAGCATAAAACATTTACCATCTAGCTCTTCATAGATAAAGTTTGCTGACTATG[G/A]ATTAGAAGAAT ATATATCATATAAAATATAAACAGAGACCTTAGGGAAACGCAAATCAAAACCATAATGAGATATTATTTCATACACACTAGGAAGGCTG rs650616 875 ATTGCCTAAATCAGCGTCAACATGCAGTAAAGGTTGTCTTCAACTGAGCTGTTCTAGTTTTCTCTTCCCCAGCACTGTCATCTAGATTTTCCATTTCAGT[G/A]ATTCCCACCCCTC GGTCTACTAGCAACAACAACTTTCTTGTATCCTTTGAGGAGACGTTAGGGAGAACCATCATTTCACAGTTAAAAGAAAGACAGTCCA rs453609 876 CCTTTTATTTGGCCACCTTTTTTCTTGTGGTATTTTCCTCTAATGGAGCTGAGTTTTCTTTGTTCCTGACTTCAAGGGCTTTCATAATGAAGCAGGAAAT[T/C]TTCCCCGACCC CTTCATGGGTAGGAACTGGTGTGCAGGGGCTGGGGCTAGCCGGCCACTTCGGCACCAGCTGAGGCAAACTCTACTCATTGGAACCGGTT rs561470 877 AGTCCAACTGCACGTGCAAGGCTCTGGGGAAATCCCTACCCCGCTGAAATAGGAGCTTGCTGTTAAGTTTCTTGGGTCTCTTGTCACTGATTGGCTGAAA[G/A]TTAAATAA GCTAGTGTTTGAGTGAGGGGCTTTATCGTTTCCTTTAGACCATCTTAAAATAGGGACTCAACCAGCCTGCTTGTCTTAATCATATAAATTTA rs356643 878 CCCCACTCATCCAAAAGCTCAGACCAGGTTGCTTGGCCTACCATTCACGACTGCGCCGTCGGTCTCCCCGTGCCTCCCCACCCTATCCTTTCCTTCTCCA[A/G]TTGAGCCCA ACTCTGCTGCCAAACTTGACCACCCAGCTTTCCCCTGGGCTGTCCTCTCCACCCCTGACTATGCACCCCTCAAAGCCACCTCATGTTCTTG rs683262 879 TATGTGAATGTGAAGTTGCACACGCCCTGACGGCCCATAGTCTTACTCTTTATATCAGACTTTTCCCAGGCAGAGCATGGAGGTTGTATTTCCTAGTGCA[G/A]TTTAATGAC TTGTCAATCTCAGTATTAGAAAACCCAACAGGCATCCTGGTTTCCAGTTTTATTGTAATACCAAACTTTTTTTTTTTTTTTTTGAGACAGA rs586030 880 TTTCTTTCTTTTTTTTTTTTTTTGGCCTTCTTATTTGCATTCAGTGAGGAGGTGACACATTGTAGAACATAACCTCCCTTTTTCATTCCATGAATCTAAT[C/T]GTTATTTCTGTGTT TGTGAAAGATAAAGGATTAGCAAGAACGCTTTGCATTAAGTCGACATTTGTAAATGCTTTATAATTATTTATGAAATTATCCTGCA rs644818 881 ATCCTGGGCTACAATTTTAGTTCCTTTTGAGAATGAGTCAGCAGATAGTGCTTGAGAGGAGAAAAAAGAAAAAAAAAAGTCTCTCTAAAACTCAAATCAA[A/G]TTCTGTGGG CCTTCAGACAAGTCTGACATTCTTCCATGAGTTGGCTGGGCCGCTGGTCTCAGTTAGGAATACTGACACTTCACCCCAGCAAACCAAAAA rs623052 882 GCCTACTTTGTCCAGGTACTATGCTACGGTTTTGGATACAGTATCTTATTTAATCAGCACAGCAACTTCAGGAGGTGCGCCACTAAGCCCAGAGGGATGA[G/A]TTGATGTCT CAAGCTGTCCAGAAACAGCCCTGTAGCCACTGCAGTCCCCTTCTCTACTGTCATATCCTCATTGTATTTTACACTGGTGCTTTCAAACCCT rs1342995 883 TACCTTGTGGAACTGACACCTGTCCTATACCTTAGTCCCAGTGAAATGGGTTCTGATAACATTGCTTGGGTCTTCTCAGCTCCTTCCATGGGACTCATTA[A/T]TTCCCTGTTC CTTTATTGCATATGGATATATCTGCCAGAACCCACCATTGCCCTTGTCATATCTAGATTCCACATTATTAGGCTCAGTCCCTATGCTTGG rs1070036 884 AATTTAAAATCCAAAATGCTCTAAAATATGAAAATTTTTGAGTGCCAGCATGACACTCAAAGAAAATGCTCACTGGAGCATTTCAGATCTTAAGTTTTAC[G/A]ATTAGGGATAATC AACCTAAGTATAATGAAAATATTCTCAAATCCTAAACACTTCTTTTTCCAAGCATCTCAAATAAGGGATACTCCATCTGTATGTTTG rs1003016 885 CTAGGTGAATTTTTCTTCCTCTTAAGCCTTTGGTGACAGGCTAAAGGGTGGGTCCTGGGCCATCCCCTCTTTATACCCCATCTGTCTGTTAATCATTAAT[T/C]GCCAAGAGAG CTCCTCCTGGGATGGGGTGACTCCTTGGCTATGGGGGATGCTGATATCCAGGATGACCTTGAACTTGTTTTTCTTGGCCCCAAACTTTCT rs725849 886 TAAAATGACAACTGCAGTAGAAACAGCTAGGTTCCACAAACAATTGTGTGCTATCTTACACTGTTTAGAATCTTTACTAGAAAGTAGCTTCCTAGCCAAA[T/C]TACATTTTCCAA GCCCATTCCAACTAGTTGGTCCTAGGTGACTAGTTCTGCCAGTGAAATATTAGCAGAAGCAAAGCGCATCGCTTCTGGGATAGGACTC rs1004395 887 CAAGATTTAGGGTTATTTGGTTAAAAAAAAAAAACAGGAAAAAATCCTTGTTCATTTATTACTTTCAGTATCTGGGTAATGAGAGCAGTTTCACCAGTAA[A/T]ATTTACATGAGA GCACAATCAGAGGTAATATTAACGTTTATATGGGCACCAAATTGTGGAATAACCCAAAAGGAGATATGTAATTTCATTAGTACATCTC rs910500 888 CTGAAGTCGAAAATGCATTTGATATACCTAAGCTATCAAGCATCATAGCTTAGCCTCACCTGCCTTCATTGTGCTCAGAGCACTTAAACGTTAGCCTGCA[A/G]TTGGGCAAGTCA TATCCAAACAATGCTGACAGCACCGCACACTGTAGGGTATCAGTTGTTTAACTTCGTGACCGTGTGGCTGACTGAGAGCTGTGAATCA rs1026791 889 TGGAATAACAATCCTTCTGGCTGCAGAGATTCAGACAAAAACAGGCACCCCCAGATGTCCAAGCACCAAACACAGTGAAAAAGCCAAGATCATTTAAAAT[T/G]GGAGAGTTTG TTTTGGCAGAGAGTGGAAGCAGTACTAAGTAAGAACTGTACACTACTTTGAGCTGTCAACAGAGAATTAATAAAAAGTGAAAACCTGTTG rs748773 890 CAGGAAAACCTTCCCATGTTTCTGATTTTTTTTTCTTTGTCTTTCCTACAACCACCAGTGCAAACACACAACACCCATAATGAATGGAGAACCTGGTTAA[T/C]TGTGTAAACTCC TTCCAAAACAATCAGGTCTTAGCCCTCCCCACTGCATTTGAGAGAGCGACCAAATATGCAACTTAAAGCTAACACACATTGGACGTGG rs1010479 891 TAGCTCACTGCAGCCTCAAACTCTCAGGCTCAAGTGATCCTCCCACTTCAGGCTCCTGAGTAGCTGAGACTACAGTCTCGAGCCACTGCGCTTGACCCCA[G/A]ATTTTTTTT TTATTTTTATTTTTACTTTTTGGGAACAGGGTCTCTCTCTGTCACCTAGGCTGGAGTGCCCTAGTGTGATTGTGGCTCACTGCATCCTGGA rs1259733 892 AAGGCAGCTCTGGGGAAATTCGTCTGTGTAACTGGGGTGCTATGCAGGCCTGTCTGTTTGACTGTCATGCAGGTCTGTCTGTGTGATCATCAGGGAGAAT[C/T]G GCCGGCCACATTTTCAATCTTTCTCCTCTTCTGGAAAAAATAACCACTCAGTCTTTAGCGTCAGCTCACCCTTCAGGGTTTGACACCTGGAGCAGCAGT rs726395 893 GAACAAGATCTCAAGGAAACACAGGAAATTCCTGAAACAGCAAAACCCCCTATGTGAAGACGTCTGTTATTCCTTTGTGTATCAGGAGCATCACTGTTAA[T/G]TAACTGTTGATA CACTTAAAACAGCTTGGTTGGCAATGTCCTTTTTGAATAAAGAAGAGCCAGGTGTGTTTTTCAGGATGAACTAGACAATGCTGTCACA rs1335075 894 AGAAGCTGAGCCCTGACTTCAGGACACATGAGGTGCAGGACCAGAGTCGCCCCTAATCAGCTAGGCAGATTGTGCTGTGTTATTCCACTTATGAAACAGC[A/C]A TTGCAGATCCTATTGTGGCCTTCTCGGGAGAATAACTGCTTCAGGCTTTGGGGATAGTTAATTTTATTGTAAAATTTACACGGATTGGGCATAAGGTTG rs1054067 895 GGAGTGGAAGCTCTCTAAGGGATACGAAATCTGATTTTATCCAAAGAAATCACAGCAGCCTTTGAAAGACACATTCAGATTTTCAAACAAACAACAGACA[A/T]TTC AAAACCAGGCGCTCTGCTTATTCACTGAAACCGTAAGCTGCTGAAACTCAGGGAAAAGCTTAAGAAACTGGTCTTAAAGCTTCAGGCCAAACAATGC rs1029176 896 TGGGTTTTAGCTGAATCTGTGATAAAGTTAATGGATATACCTTTGAGAGACACTGTCTCACTCATAATAGTTGCTAACAATAGAAACCATTGTAGCTAAT[A/T]CATG TAGTTGAAAGCATATTTATGACTGCTAGAGATTCAGGCTTAGAGGCTATGCAGCCAAAAGTCTCCCAACTATATCATAGAAATGCACCAGCAAAGA rs880385 897 CTAAAGTGCCATCCTCACGTGAAGGGTTGTTGTTGCTGACAGCGTTTGTGAAAGGCCACAAAGCTGTTGACATCTGCTGCTTGGCACTGGCTGGGAAAAA[T/G]T TCAGAGGGTCCCATACTCATGCATGTGAACTTCTGGGATTTCTCATTCTGGGAACATTATCAAGAGGCACTAGTTGACTCCCTTTGTCCCCAAGGGAGC rs1458207 898 CATTGCTCTACAGCCTGGGGGACAAGAGCAAAACTTCACCTCAATAAATAAATAAATAAATAAATATTATATATTGGCTATTCTTAAATCTATATATCCA[A/G]TTGGACTCCCACTT AGATATTTGAGAAATATCATATACATACATGTCTAAACAGAACTAATGTTATTCCACTATACCCCTAAACCCACTTTTACCCCAGT rs1376827 899 ATCAAAAATAAATAAATAAAACAAGAGGAAATTGATTTTGTGGAGAGCATGGACACATTTGTTGTCCATAGGGAACTAACAATAACTTCCAGTGACATCA[G/A]TTCAAGAAAAAA AAATAGCAGCAGGGAGTGAGAATGTCATCTGTCAACCCCGAAAATGATTTTGGTTAAAATAATGACAACAACAACAAAACTAAATATC rs2063506 900 AAGTATGGGGAAAGAAAAGTTAAAAAGAGGAGGCAGAAATAGAAACTATTTTAGGTGAGATAAACTCTTTAAGGACTCCCTACTCATTCAAGTCTTCTAA[A/G]TTC CTTCCCCTGAGGCTTTATTTCTGAAATGGGATCCTTGATTCTCATAAACCCTTAAACTGGAGGATACTTTGGTTTCCAGTATTATGGGCCCAATTCT rs1593443 901 CCTTTCTATGAAAATTTCAGAGTGAGCTTGGCAATCTCTATAGAATCACTTACTGGAGATTTGATAGGAAGTGCATTAAACATATATAAATGTGAAGAGA[G/A]TTG ATACCTTTACTATATTGAGTTTTCGAGTTCAATGAGCATGGTATGTTTCTCCAAGTATTTAAATCATCTTTGACTGATTTCATTAGCATTTTTAATT rs2401505 902 AGGTAGATGACCAGCGATGCTGTTTACTACATCCTACGCATGCTGAGATAGATGAGTGGGACACCATCTCGGTAGGAAAGAGTTTGACAGGAAGAAGAAA[T/C]T GCAGAGTCCCTGCCTGTCCCAGAGAACCTAACAAACTGATCTATATGGAAAGGATTTTCAGCAAACATGCACAAACACAGTTAATATGCTGGAAGAAGA rs2367059 903 AAGGAAGGAAGAAATGCTAAAGCTACAGTTTTATGACTTTTGTTTGCATGATTTCTGCTCAAATAGGCTGGAGGAATGGGATGATGACTATATTCTAACA[A/T]TTA AAATGCTGTCAATACTAGAACTGTAATACCACACTCCTTTAAACAAGAAAAAGCCACATTTCTGTTTTTGTGGTTGACTACATGATTTAAGTTTTTG rs1367452 904 CCACAGCAAGAGTTAGAGACACAGCCAGGACCAGAACTTACTGAAAAGCAATAATCCAAGGTCTGACTTGGGTTCTGAGGATTTGCTCAGTTATAGATGT[C/A]AT TCTCGATTTGGCCTGAAGAGGGCAGACACTTGCCATTCATGGAGGTGAAGAGCTTGTTTTTAAGGCTGGACTAACATCTCCCAATAAGGTCATTTGGT rs2241491 905 AGGACCAAGGATACAGTCCAGATGTGTCATATAAAAATAAGACCCTTGCACCCGACTGAGTCCACAGCATATTAAGTTTATATATCCATCCATAGTTATA[T/A]TTG GGAGAGCTTTGGGAGAAATAATGGTATTCATTATAAGAGGCTTTTAAAAAAGTATTTCAGCTAAAAAAAATTGAGGCATGCTCTTTAAATTGTTTAC rs2007475 906 CCTGCCTGTTTCCTGGACAGCCGCAGCCTGTACATAGCTTGGGCTGAATGTTAGGTAGAAAGATTTGGGACAAAGGAGAATCAGCGTTTCACGTTCAAAA[T/C]T GAACTGGGAAGCTGTTTTGCTTTTAAGTTAAATCAATGAATGAATAGATCGAAACAGAGAGAGAGAGGAAAGCATTAAAAAGTCCCCTGAAATTCATTG rs1372688 907 TTTCCAGTAATGAACCATATAGACATCATTTACTCCCTTATATAATACAGGGATAATACACTTATACCTAATGCTTGTTAAATGTGTGTTCCATCATCTA[T/A]TTATG AGAAAATGTCAGACAAAACTAAACTGAGGGATATTCTACAAAACAAATTGGTAAGTACTTTTCAAATATGTCAAGCTCTGTCTCAATGTCTCAGT rs2304748 908 GGAGGGGGCTGCATACTTCTCCAGGGCTTTTGCTACCTGCCCCAGTGTCTCCGGCATTCCGCGGAGCCGTGCACCAGTCCCCTCAAATAACCTATCAAAT[T/C] CTGTGGCTTCTATTAGATCACCGAGGTCTTTAAGAACTGCATCTTTTACATTGCCTCGTCGTGCCTCCGGGCGGGCAAGACAGTGTAAAATCTTGGAGAA rs2207800 909 GCACGAGCTAAGGGGGCGGATGGATTCTGAAGAAGTATTTCCACTACCAAGAAAGGCAATGTTGGGAAGAACCTTTTGGTCAACTTGGTCAACTTCTCCA[G/A]TTCCAGTAGA GCAATCCAGCTTCTTTTGTCATCTCCTCTTTATCTTTCATCCAGAGAGCCCACATAAGCACTGTTTAAATTTCTCTTGACTTGTCTTACT rs2373814 910 GAATGTCACAAAAACCCAGAATGTCACAGTATTGTTTTCTTCTTGCTGGTGTCCTATCCTCTCTCCTAACACCAGCCACCAAAGCTGATTTTTAAAAAAT[G/T]CCATGATTTCTCTT GTTTACAAGAAGCTGTTTCCTATACCCTATTCTTGAAGGATAAAGAAATAGTCATTCAAAAGAAATATCTGGCTTTTCACAGTGTT rs1543513 911 ATATAACATTTGGCACTTATAGAAAAATATAACAAGGAAAAATTATTCCACATTCAGAGACAACTAGTTTTTTCATATGTATGTGTAAAAGTACATATAA[C/A]TTTATTTTGCCTGCT TTAAACAGAACTTACTCTACCAGTCTTCTGAAAGCAAAATTTGTGTTCTACATAGGCAGTTAGTTCAGTAATCCAAGTTTTTATT rs1904161 912 TCATTTGTTGAAACAAACTTTATTTGTTTCTCTGTTTAGAACTATATCTGTGTATTTATTTTAATAATATTATAAGCATCCATGGACCTACCACCCAAAT[T/C]GAGAGCTAGCTCTCT TTTTTGGTAACTACATCTGAGCACATTTACCACCTGCCTTCCTCCACCTGGGTAACCATCAGTCCACTTTCTACATTCCTCAACC rs1444647 913 ATATTATGTACAACTATATGAATTTAAGATGATTTCTTTATCTAGTCTCCCATCTATGATTTCCAGTTTTTGTCTACTTCAAATCATGCCTCTATTGACA[T/A]TTTTGTGTGTGTCTCCAGA TATGCATGTAGAGATAGTTCTCTGTGATATGTTCCTGGAAATAGAATTGGTGAGTTGTAGTGTACTCATAACCTTAACTTT rs1420562 914 CCAGAATTCAAATCAATGCTAACCCCAGAGCTCGCATTTTTAAAACCCTACACCACACTGGCTCCATTCAAGTGTTGATATGAGCCTCTGAGACTGAAAT[T/C]AAAACAAGCAGATTT CGTTCAACTTATTTAACACAAAACCTTCTTTTGTAGGATCTCACGAACTTCAGCTTGCACACATCCCGTGTTGGAAGATGCCAGC rs1850422 915 AATATATAATACGTGAGAGGTGATAAGCGTTATGTAGAAATTAAGCAGGATTAAGAGGTATAGTGGAAATGACTGTAGGTTAAGAGGGAAAGGGTGAAAA[T/A]TCAGAGATGTTCTTTCAG TCAAGAACAAGGCAAGTATTAAATAAACTTATACTTAGGTCTACTGTTCTTAATATGTTCCAGCTCCTGCATGGTCCCTGTT rs1916803 916 TGAGCAGGTTCCTAGCTCGGTGCCTTGCACAAAACTGGAGCTTAATGTTTGTTGATGAGGTGAAGAGGGGGATACTTATCAGGGGCCACATTCATGGGAA[T/G]TGGATACTGAGACA GAAGTGGGTGAGTCAAAGGTTTATTGGGCAGTGACACTTGTGACAGTCCAGGGCATGAAGCAGAAGCAGGATCAGGCGGGAGGAGC rs2451984 917 TCTTGTTTTTCTGGAGACCTTGTTATTCAGCCTTTTCTTTAATCCAGGGAGCTCTTCCATATTTTTCAAATATCCTGAGTTTTTTGTTTGTTTTTTACTT[C/A]ATTTAGCCGGAGTGTGTCT CTATTGTTTGCCAATGATCTAAAGGATATGTTCGTTTAGTATTTTGACAAATACCTCTAATTGTCTTCCAATCGGAGGTAG rs2462049 918 TTAAAAAGTTCTCTATAGAGTGGGATTTTTTAATAATACGAAGTTGGGGAAGGGGAAGGTGTTTGTCTCATATTTACTTTCTGCAGCTCATATTCTGCAA[G/T]TAATATTCTTGCTCCT TTCAAACTGTACCAAAACACCCTCATTAAGCAGTCAAGCTATAACCACAACAGCATCACCACACCCTCAAGAACAGTTGAGTTT rs1503660 919 GAATTAAGTAGAACCACTGTCACCACAACTTAACAACTATGATGTGCCAAGAGGTTTCATAGACTTTATAGTCTGATTAGGCCTAAGAGCTGGCTTTTAG[A/T]ATTTACTATCTGTTA TTGAAACTGCTTCCTTGACTGGTATATCTAACAGTTTGGTCAGATAACTTCATCCTAAAATTACAGAAGTGAGAAGGGGTTAAAG rs2092797 920 AAAAATTGAAGGTCTGCAGCAACTCCATTTTGAGCAAGTATATTAGCACTATATTTCCAACAGTGTATGCTTGCTTCATAACTCTGTCACGTTTCAGTAA[C/T]TCTTGCAATATTTCAAA CCTTTTCATTATTATTATATCTGTTACGATACTGTTTTGTTTGTTTGTTTTATTTTGTTTTGAGACGGAGTCTCGCTCTGTTA rs1401454 921 AAAGGGTACAAAGTTGCAGGTATGTAGGATGAATAAGTCTATAGCTCTACTCTACAACATAAAAACTGAAGTTGATAATATTGTGCTGCATGCTGTAAAT[C/T]TGCTAGGAGAGTATA TTTTAGGTGCTTTTACCACACACACAGAACAAGGTAACTATGTGAGGTGATGCATATGTTAATTTGCTTGACTAGTAATCATTTC rs2427102 922 CACTCTTCCCCCACTCCCTATTGCAAGAATCCCAGCCTGACCCTGGCCACCTCTGGCCAGGGATTGTATTCGAAGACTGTCAGGAAGCTCTGGAATCAAT[G/T]GAGCTGGGGGACC CCAGCTGAACAATATCCAGGAACCAAGAGGCCTGTGGAGAGCCAGGCAGGGCCCCGGCCATCCCCAGGCAGGACAGCATCAGTGCTC rs1912619 923 AAGCTGCAGCACACTCATTCCACTTTGAATATAATGGAAGAAGAAATGCCCATCCTTCACTAACTTGAACTACAAGATTATTTTCCACCCTCAGGAGGAA[C/T]TGGTCTTTTCCCACCA CTGATGGGCCACCACTGTTGCAGGATTTAAGTGTTACCTCGGAAATACCAAAAAGATAGTTCTATTACAATGTTGTATCCTATA rs1378933 924 TCACATACTTATTGTGTGCCAGTTGCTGTAGTGGGCACTGTAATACAAAGGTGAATGAGGCACAGGCACAGGCTTTAACTTTCAATGGAGAAGACAGAAT[T/C]GTAAGCAATAGTTG TGATACCATGTGTGGAGAGGATGGTAGAGACAAGAACAGGATGTCATGGGATACCTGGCCCAGAGGGCCACTCAACCCAGCTGAGG rs2034877 925 GTCAGGTATTTTGCAAAATGTCCTTCAATTTGGGGTCATCTGATATTTTCCTATGATTAGATTTAGGTTATGCATTTTGGGAAATAATACCACATCCAAT[T/C]TGTAATCTGGATTTTG TGAATAGGTAGACATTTAGTTCACTTTCATCCTGACTTCCCACAGGTAACATGCCTCCTTGTATTATCTCCCAGTCCTTTGCCC rs1548605 926 AGTGCACGGCCAATGAGGCCTTGTGAAGTCAAGTTCCAGTGTGGAATTTGGATGGTGATAATGAGAGATTGAGCTTCAGTCCCCTAGTGTAATAGGAAAT[G/T]CCACAACGAGATAT AAAATCCTTACATGAAGTTTCCCTATCTACACAAGACTGAATCGAGGCTATTTCAGTTCGTGTTGCTGAATGTTCTCTCTTGGTTT rs1540885 927 TCAATGATAACTTCCTCACTGCTCTGCAAAACAATATGCTCTCTTTGGGAGAAAATGAAGAAGAATCAGAGCCAGCTAGCTAGCTAGCTAGCTAACGGGC[G/A]AT TGTTCAAAACCTGGGGGGCACATGGGAGTATGTCATAAAGTCATGTCACCTGCCAGCTTGCCAGCTTTCTAAGTAGGGTGAAAGGATTAAGTAAGAAC rs1870836 928 AGGATGGACTGTAAATCCAATGAGAAGTGTTCTTATAAGAGAAAGGAAGGGAGGGAAGAAAACATAAGAGGAGAAGGTGATGTGAAGATGGAGGTAGAAA[C/T]T GGAGTGAAGCATCTGCAAGAAAAGGAACTCCAGGGATTGCCAGCAGCCACCAGAAGCTACAAGACGCATGGAATGAATTCTCCCTCGGAGCCTCTAGAA rs1822243 929 CTCTACTTTCTGTCAACCTGGAGAAAGTCACTTAACCTTTCAGCACCTGTCTCACAGTGAAAGTGAACAGTTTAGGTCAAGAATGCTTTCAGCTCCAAAA[C/T]TCT AAGTCCAATACGATCACAGAAAAATAAAGTGGCTACATATACGGGTGCACACACACACAGAGGTTTGTCTGTGCCAAGAGAGCTCCACAGGAGTCTG rs1536069 930 GGAGTAGATGCCTGAGGTTGTCAGCAAATATTGAAGATTTTTATTTCCAGGGGGTTAGAAACTTCACGTAGCTTCTCTGCTCTGCACACATAAGGAGTAA[G/T]TG GATTATTTTCCCTGAGTCAGTAAGGTTTTCGGTGTCACATAATCTCAGGGGAACAAATGCAATTGCTTAGATCTCAATATACTCCTCAGATGGCAACT rs1363267 931 AGATGATGTAGCTGGACATTTAAAAAAGCACAGTAGTACATGCAGGGTCACATCACAGATTGAAATGAAAAAAGTCCTTGTTGTCATTTTTATTTCACCA[A/G]TTG GAATAAGTTTTCAACTTGTGAAAAGTGCTGCACAAATCCTGGAAACTGAAATTCTTTACTAAAGCACAGGGAAGTGCAGGGCAATCAATGGCAATAT rs1797700 932 CTGGTCTTAGAACTCCTGACCTCAGGTGATTTGCCCCGCTCAGCCTCCCAAAGTGCTGGGATTACAGGAGTGAGCCACCACGCCTGGCCAGAACTAATCAA[C/T]T ATGTTTTTGTTGCATCTTTGCCTGTCTCTCCCACTGGGCTATAAGCTCCTTGAGACCGGGAATTGTGGCTTTGTCTTATATACTTCTGCCTAACACAAT rs2435556 933 AAGAAGATGCCATCCAGGACTTTCATAGCAAGAGAGGGGAAACCAATGCCTGGCTTCAAAGCTTCAAAGGACAGGCTGACTCATTTGTTAGGGGCTCATG[C/A]A TTTGGCGATTTTAAGTTGAAACCAATGCTCATTTACCATTCTGAAAATCCTAGGGTCCTTTAGAACTGGTCAAGTCTACCCTGCCTGTGCTTTAGAAAT rs2126316 934 TTCTATGAGGCCAGTATCATCCTGATACCAAAACCTGCCAGAAATACAACAAAAAAATAGAACACTTTAGGCCAATATCCTTAATGAATATCGATGTGAA[A/G]ATT GTCAACAAAATACTAGCAAACTGAATCCAGCAGCACATCAAAAAGCTTATCCACCACAATCAAGTAGGCTTCATCCCGGGGTTGCAAGGTTAGTTCA rs1418136 935 GTACAATCTCCAAGACATTTTAATTTTACCCTGTCTTTTATCTGACAGAGTTACCTGCATATTTTCTTATATATCGTCACCTTATATTTTCAGAAAAATA[A/T]TTGTAC TTCAATAGAAATCTCTATGCATGCTCTGTAGCATGCTCCAGGTTACCTGAATCTGATTTTATGGAAACTATTTTATAAGTCCGTAAGTCATAGA rs1432865 936 CCATGCTACTTCTCCAGTTCACAAGCTGCAGCCACACAAAACCCAGACCTGCCTCGGGGCCTTTGCACTTACTGCTTCCCTTAAGATTCTCACATGAATA[A/G]TT CCTTCTTGTCATTCAGTTTTCAGCTTAAATGTCACCTCCTGAGCTCCTGTTTGGAGTAGACTTCCTGTCAATTCCCCTCTTTATCACTTTGCCCTATT rs1885121 937 TTTCCATTTTTCATTAGCCCCACTGTCCACATGCTCTTGACCATTCTCAGAGTCGGGATCTGACCATGACTCTAGTGACCTTCAATATATATAATCATAA[G/A]TTGG TGTCCTTTGTCTTATAGTTGTTTCCTGAAGAATCGTCTCAAATGTATACAAATCCTGGCATTTAATTGTGGGAATGGATCTGCTACTGTGCACAAA rs1720839 938 TTAAAGGTATTGAAAATCCACATTGGCCAAGAGCTTATTCTATTTTCAAGTAGAGATGTTGCAAAGATGCAAGATTCTCAAAATATAGTGAAAGGTTGAA[A/G]ATTA AAAGACTTATGCTTTCATCATCTTTTCTTTATCATAACATGCATAAATGTTCTTATAGACTGATATGACAGGTCCTTCAGTACCATATGCTCACAG rs2030926 939 GAAAGTTCTTCATTTTACGGGCTGTGAAAAGGGGGCATCACAAGTGACCAGTCCAAGGGCACACAAATGGATAGGGATAGACACAGGACAAGAAACCAAA[T/C]T TCCTCAATGCCAACCAGTGCTTCTCATACCCTGCTCACCTTTAACTACAAGATGTCAAACATCAAGATAAAAATAGCATGCTTGGCCGGGTGCGGTGGC rs2247858 940 ATTGGTCTTGAAACAGTTGATGCTTTGCCCACATGAAAAAAAAAGCAGTGGTATCAATAGCCAACACCACTTAGCTAAATGACCTTGTTCCTAGAAACAA[C/T]TGC TTAACACTATTGTGTACAGAGTCCTGGACATACTGTAACTTTTCTGATTATCACAATGCACCAAAATACATCATCTACTAATGCACTGTATATAAAT rs1597205 941 TAATGTTAGCTGTGGTTTTGTCATATATGGCCTTTATTATGTTGAGGCACTTTTTTCTGTTCCTAGTTTGTTGAGACTTTTCTTTTTGTAATCAATAAAT[G/T]ATATCA GATTTTGTCAAATGCTTATTCTGCATCTATTGAGATTATTGTGTAACTTTTATTCCTTATTCTGTGATTATGGTGTATCACATTAACTAATTTT rs1346718 942 ATAATGTATACATAGGTTTTCTGAGGGTGTAAAAGTTCATGTGATTCACGTCTTGGAAAGTGGAGGCTGAAGAATGCTTTCCCATTGGGTTAGCAGCTGA[A/G]TT GGTCTGAAGAGGATAGTCAAGGGAAAGGCTTGCATCCATACAAAAGAAAAAGTAATAAACCGAGATCACAAAGTATATGAGGGGCTTCCTGACACCTA rs1514424 943 TAATTCTTCTACTTGCCTGATACTCATGGCATATCAACATTACTTTGATGAAAAACATTAAATCTCTTTGGATTAAATGCCTGCAGGTAATATCAAGTAT[G/A]ATTTA CCTCTCACAAGCCTATTACACATGTTTAGGAAAGACGTTAAAAAAACAGTATTTCGAACAATTAATGCTGTAGTTGTGTTAACCTGTGTAACTGA rs2168524 944 AGAACTCAAAACAGAAGCAAGCAAGCCCTCAAAGGAACTGAGAAAATTTCTCCCCACTTTGTTCTGAGGGGTCTCAGCTACTCTGGTATTTAAAATAAAT[G/T]GG TTTTGAAAAATAGGTTACTGCCCTTTAGTTGATGACTAAAACAGAAGCCAAGAAGTGTGCAAATTGCAAACTGACATGCATGAGCCAAACATATTCTC rs1910369 945 GACTCCATCCCCTACCACCATGTCACAATGTGATAGAAACCACTGGGTAAACATATTTCAGATAATAGTCCAAGGGGCTTGAATAGCTAGATACCCAAAT[C/T]CC CTTTTATCTTTATCTTGAACTGCGTCTGGCCTCCAGATCTCTAGCTAGGTAATCAAAGTGGCTGGTTTTTATTCTTTTCATGTTGCAACACCTAGAGA rs1445496 946 ACACTAACTTACCATAATAACATCTTTTAAACTATTTTCCATATCATTAAGTATCAAGTGTTGTTACCCTGTAGTAGTACAGAAGTAACAGTAAACTAGC[A/G]ATTAA TAGAAAAAGCTAGATTCCTGAAGGTTATGGCATTTAGAAAGATCTTAATTGTTCACAATGGTAAAACTAGGAAACAAAAGAATTCTATAGCCTCA rs1462685 947 TCATGATAACACCAAAAGGCTGTGGCAGAGTTATCTTATACATTCACACAATTCTTATAATAGGGGCTGCCAGCATTCTGAATGGAATGTAATAGATATT[A/G]ATT TGCACACCCAGGTGTGAATATTGTGATTTCCTTTTACCACCTTCCAGCTTGGAAATAAATGAGCTTCTACTGTTTGTTGTTGCTCCTTTCCTCATTC rs2298810 948 AATTTCTCATTCTGGGTACCTCATATTGCAAAAGAGCCTGTGGCCTCTGAGCTGACTTGGTCCAGTAGGAAAACAGGGAAAACAGTTCGTATTTCAGAAT[T/C]GA CTGTCACAGCCTTGAGACCTGAAATGTAGCCCCCATCCATGAGTCAGTGAAATATCTGTATTTCTTAATTTTCTTTCCTTAAAACCACACTCTCCCTG rs2191076 949 TCTTTGCCATTGTGAAGAGTGTGGCAATAAACATTTGCGTTCATATGTCTTTATAGTAGAATGATTTATATTCCTCTGGATATATGTCCAGTAATGAAAT[T/A]CCTG GGTCAAACAGTATTTCTGTTTTTAGCTTTTGTGGAGGCACCATACCGCTTTCCACAATGGATAAACTAATTTACACTCCCACCAACAGTGTATAAA rs1439047 950 TTTCAAATACTGCAAAAATGTTTCAGCAAGCATCCTTATTCATGCTTTTTACACATATGTACAAGTGCAAAGTTTTTTCTAGAATACACAGAAAGAAGCAG[A/G]ATTG TTGGTTTATGTGGTTTGCACATGAAAAAATGGCTGTATCTATTTATGCCCACCCTAACAAGGTATACCTTGATATTAGCAAACTTGTTAGTGTTTG rs1904185 951 AATTTTAAAATTTAATTTCAAAATAGGAAATACATAGGAACAAATCTGACAAAGATATAAAAGATGTGTACCCTAACATGTGTAAAACATTGCTGCACAA[C/A]TTAAA GACCTAAATGAATGGGAAGATATACTATACTGTGTTCATGGGTCAGAAGCTTCAATATGATTAAGCTGTCAGTTCTCCCATATCAAAATCCTAGT rs2322301 952 TCAGTTGATGTCAGCTCCATCTTCTCAGGTGTTCAGAGGAAAAGACTCAGAGTCATTCTCATTCTCTTTTTCCTCCTGTACCCTGCAATCTGTCTGGAAA[T/C]TAT ATTAGTCCTATCATAAAAAATGATTCCAGACTCTAACCACATGTATCTATCTCCACTGCTACCCCAAGCAGATTCAGGTCCTCCTCTCCTCCACCTT rs1789529 953 GATTTTGCCAGAGATCATTCTTTGATGTGGGAAGTGGTCCTGTGCATTAGAGGATGCTTCGCAGCAACCTGGCCTCTGTTAACTATTTGTAAGTAGCAAA[C/T]TC CTCACTCCTTGTGACAATAAAAAATGTCTCCACACATCACCAAATGTCTTATATGGGCAAAATTGGCCCCAGTGGCAACTACTTCTTCAAAACTGCCC rs4489023 954 CAACATGTGTTGAGAATACTTTTGCAAATGTTAAAGTCAACATGGCTATAACAAGCCCAAGTTCTCCAGGAGGAATGCATGCATTTAAAATGGAATCAAA[A/G]TTT ATAGAGTACAATAATAAGAGCCCTCTTACTTACATTTTCATTTAATCACATGTATATGGCCATCTTGTCCATTTTGAGGTTGGGCTTTAGGGAAAGC rs7266163 955 CAAATTTCTTACCCACAAAGTTCATGAGAAATAATATAATATTTGTTGTCTTTTCGCTAAGATTTGTGTTGATCTGTCACATGGCAATATAAATGACCAA[C/T]TGAG CTATTTTCTCAAACTTCAGGGCTATTTGTTCTCATTGAAAGATTATATACAATACTCAGGAAACTTCATATAATCATCTATGTGATGTTTCTAATT rs2865878 956 AGTACATTCCCTTTTAGGGTCCCTGTGCTGTGAATCTCATAATTGCTCCAGATTGTGGCTGTGCTGTCCTCCTGGGTCTCAGAGGGGGGACGATGCAGAA[T/C]T GAGTCCCTCCCCAGGATCCAAGACAGATACGAATGTTAGAAAGAAATAACCCTTTGTTATTTTGAACCAGGACGATGTGGTGCTGCTTATGACCCACTG rs7320201 957 TCCAGAACATCCTGGGTTCAGGCATATAGGTTGTAGAACAGTAAGATTTCTGTTCAGATTTCTTTTGTTTATGCTCATTTATAGAAGCAGTCTTTTTTTT[A/T]ATTTC AGTAGGTTTTTGGGGAACAGGTGGTGCTTGGTTACATGAAAAAGTTCTTTACTGGTGATTTCTGAGATTTTCATGCCCCTATCACCCGACCAGTG rs4764597 958 CGACTTGCTGTGCCTTCTGGCATCCGCTTCCCAATCAGAAACCTCACACATGTCTGCAAAGCTCCCCCCAGCCAGATCCTCCAGCTCATCTTCCTCTGAA[C/T]TG TGTTAGTTGTACATATGGAAATCCAGAGAGCCTCCAAGGATTAGAGTCCACGTCTTTTTTTATTTGGAACTCTTACCTGCCGACCCATCATCAAGGAC rs4399565 959 ATTTTGTGAGGATGTAAGCAAACTAAGAAAATGTCAGATATGTCCAGCTACTAGTCTAAAGTGTTGACCCCAGTGTGGGGGGCAGAGAGGGAGCATGTAA[G/A]T TGTCCTCATCTCTAGAGCAGCTTCACAGAAATCCAGAGGTTCTTTTAGCTCTGACACTCTCTAACTCTGGGAATCACTAAGTCAATGGAGTTCAGAGGG rs6542638 960 TTATACGAGGCTGAGTCCCCCAGACCTGGGCTACTTGGGTCTAGGAAATAGAGGCTGAAAGTACTAATGGCTCAGTTTAAAGTCACTGCCAGTGACCTAA[T/C]T GGGAGAGTTTTTTATTTTCTTTCCTGAAACTCTAGTCTTTGCAGGGTTATAGATTCTAGCTCCCAAAGGGGAAAATATTTCACAGGGGACACTATAGGA rs4953843 961 TTATCAGAAGAAAGTGTAAGAATTAAAGTTCTCATTACAAAAGCTTTGCGCATCAGGCATTTTATACTAGGAATGCTCAAAATCTAAAGCAGAGATAAAT[C/T]ACAT TAATATGGTTGAAAGCAAGGGTCCTGTATGTATTCTTGAAGAGAGGGACTCTATCCTGCAGTAGATTATAAAAATTTAAGAGCATCCTTCTCCTTC rs7810506 962 TACATCTGCTTTAGCACCCAAGCTCTTGCTTGGTGAAAAATTAATAGTAAACATTCATCTTTTGAGCATCTTCAAATATCCCCTTTAGAATGACATTCAA[T/C]TATTA GGTCAGTAACCCCAAGAGAAAACGGTTGTTTGAGTGTATATACTGTATTACAAAATAAGGGGTGAATTCAAAGGAAAACATAAGATGCAATTCGT rs4708590 963 TGGTAAGAGAATCCGCACCTGAAGAGACTGGGAATGAATGGAAATTTTCCTCCCAAGAGAAGGGCTTTGCATCCTCCAGGGCCAACTGGATAGCCGTGGA[A/C] ATTGGCTGTGCAGTGGGCTTCTTCTCGCAGCTCTGCAGTCTTCTGGGGCTGTCAGCCACGATCACCTGCGTATGCCTGATGATTGCCACTCACAGGGAGA rs3128688 964 AAGCCTGAAGTTTAAACTACCATTTTGAGATCTACCCTAGAGATTTACTCAACTCTCTGGGTTATTTCTCATGTGTACAGAACATATACTTGTACATGCA[A/T]TTCA ACTTCTGTCCATTTTCCTCTTGATAATCTGTTTTATTCTTCCCGGGAGTCTCAGCTAAGAACTCATGAAGTGGAGAATATTATTTTTCCTCACCTA rs7689368 965 TAATCTATTCATAAGAAAAATATCTATGAACCCAATTGAGAGACATTCTACAAAATACCTGACTAATACTCAGGTTGAGGTTATAAAAATAATGTAAAAA[A/C]TTTTC ACAATCTAGAGGATCCTGTGGAAACATGGCAACTAAATATAATGTAGTATCCTGGATAGGATAACGGGACAGAAAAATAACATTAGTAAAAACTA rs6962207 966 TGACTTCCCCTGTGGCATGCCTGCAAGGAAAATACATTGACCAAAGGATTTGAGTGATAGGTCCTCTCTGCAGTCATTTTTTAAAATGGAAATCAATAAA[C/T]TCG TATTCTTATTTTGTGTGTTAGTTTTGTGAGCTTGGTTAATGTGATTTCCCCTATTTGTACTGACTGACATACCATCATCATCAACCTGCAAAGGTTG rs2647415 967 AGTTTGTATTTGACTCAAATACAATGTGAGTGGCTTTGTGGAATTAAGATATAGAGATAGATTTGCTACGATTCAGTAATGAGTACAAGGTATAAGAGCA[A/G]ATT ACCATCATAGTGTCTTTTCTTGCTCACGTCCATTTACTCAACAAGACTTATTGAACATAAGGCACTGGTCCAGATTTTTCCAAGGACCAGTTAAGAT rs6766358 968 CTGTCAGACATTCAAAGAAGAATCAGTACCAATTCTATTGACACTATTCCACATGCTAGAGAAAGAGGGAATCCTCCCTAAATCATTCTATGAAGCCAAT[T/A]TCA GCCTAATATGAAAATCAGGGAAGGACATAACAAAAAAAGAAAACTACAGACAATATCCCTGATGAACATAGATGCAGAAATCCTCAATAAAATACTA rs4894467 969 AGCACGCTTGTACTGTATTTCTCTTGGCCCCTTTCATCTAGAATTTATGCAAGAGAAGGTCCTGTTAGTAGGGGTTAAACATTTGGATTCAGCTATTCCT[A/G]ATT GCATTTTAGTTATTACATCATGTAACCCAATACATTTCTTTTGTTGTTGTTACTCTTTTTTGCTTGATTCATTTTTAATGTTTCCTTTTGTATTAAT rs7818415 970 CTGGCATATTTTAAACACTCAAAAATATTTTCTGTAAAAATAGTCCTTGTTAGACCTCCACCTATGAAACCATATCACAGTTGTTGGGTTTTTTTGTCCA[T/A]TTGTT TATTTTAGTTAAGCTCTCATTTGTTTTTAAGAAAAACTCTAGGTCTTATAACTCCTCATTAAATCTATCCTACAGCTCCTCTTGATGTCCAGTTA rs2928668 971 AACAGCATGACTCTGGCCGACCGCCTGGCTTCTTTCTAGTCTTCCTTCTGTACTTTGTGACCTTGAGGCAAGTCATTTGGTCTCTGTGCCTCAGTTTCCC[A/C]AT TTGTGGAATGGGGATAACTGGTTGCTAATATTGCTGTTTTTATTGTTATAATTATTTTGTAAATAGAAGGGTTGAAGGTTCAGGGAAGCAAGTTGATT rs2993531 972 ACACAATTAATGCCAACATTTGTACTTACATTTTCCATTTTATGAATTTAAGTCTTGTTTCCCCAACATAAGGTAAACCTTCTTGGAAAACACACCTTGT[A/C]ATTTA CACTTTCCTGTATCTCTCAGTGTTTATATAAGTTGATCAGTTTTTCCTTCAAAAATTTTTCTTGGGAAGCCAAATTACTAAAAGGGATGTACTTT rs6941784 973 ATTGCATTTTATATATATGTAATGTTCCACAAAATGTTATATAAATGACATTTACCCACAAAGGTAAGAATAAGAGGAATGAAGAGATTAAAATAGATAA[C/T]TCTAA GTTTCTCTCCAATGTCAGGGACTAGGCCTTTTACATCTTCATGCCCGGTCACTGGCACATACTGAACTTTCATATACTTTTCTGCAGCATGATTG rs4680921 974 ATATGGATGTGGGTGAACATGACAGTTTCAACTATAATTGCCAAGCAACACTATGGTATTATCTGTATTGGTTGACACCTTTTAGTCTAAGGAGAGAAAT[C/T]GCC AAGTGGCACAGTTCACTTGGTCTTAAAGAGACATGAGTTGGTCTTCACCTTGACACAGAGCCTTGCAAGATTAGCCAGTCAGCTCTGTGAAAGCAGT rs4716945 975 CTTTGTAAGTGAGCTTGTGAGGTTGCAGGATCTTAGGATCTTGCCTCAGAACTTCGAAGCAGCATGAAGCATCTAAGCACAGCTCTGTGGAGCACAGAAA[A/G]T TTGAAAAGAGCACCTCATTCTTGGCTCCTGAGGAAATGGCATTTGTTTGCGTCTGTAAGGAAACCACACAGGGCAGTGTTTACAAGTATTTCGATTAAA rs4897019 976 TCAAAACTTCCTCCCAACTTCTAAAAGTTCAGCCAAGAAAAAAGAATTTAGAAGGCAAGGCAGGGAAGATAAAAACCAGACATTCTGTTTCCCAAAAAAT[T/C]GAC TTCCTTCTTCCCTTTGAAAATCTCCTTTTCTGCAAAATATTGCCCTATTGTGGGAGATTTTGCTCTTCTACCTTAAAAACTCCTGGAGTCCTCCTTG rs4667489 977 AATTTTCAGAATTAATTTAATTCTGTGCCTGAATTATTTTAATTTTCATGTAAGACTGATTTTTGCTAAGGGTGTTTGTTAGCAGCTATGCTGGAGCAAA[T/C]TCTAA GAAACTAGAGGTCCTGGAAATCTGAATAAATCTACAGGTGAAGACTACTCCTTGAACTTGGGAAAACATCAGAATTGCTGTTAATGTACAAATAA rs6929257 978 TAAGTGACAGCTCATTTTCAATTTAATTCATTAAAGTATTCCTCTCTACTCCAAAAGAGATAAATAGACTTTGTCAGAGATTTCTGCCTAAGGTGTTAAA[C/A]ATTG CTCATAGTTCAATGTTTAAATAGTTTAAAAAACAGGATCATCATGGCAGATGGGAGGCCGGACTAGATTGCAGTTCCGGACAGAGTAACGTGCGGA rs2657300 979 AGGGTCTCTTTTCATACACCATAAAACAGAGACCCAGAGGCAGCTCGCAACTTGCTCAGGTCATGTATTAGTGAGCATCAGAGGCAGGCCAGGACCCCCA[A/G]T TGCACAGGTCTAGGAAGCACCATTTCATCCAAGTCTATGTTGCATGCCAAAGAGTGTCACTGACAGAGAACACAGTGAGACCACTGCTACCGCCCTGGA rs7703746 980 GCCATCCAACAAAATTATTATCCGTGCTTGAAAGTTCCCTTTCATTTTTTAACATATGTTTATACATATTATATAGGTTTAAGTAATGATGCATTTACA[G/A]TTTAAA GACTGATGTTTACTTGATAATATATCATACTTACTTGCTATTTTAAAAACTTCATAAATTATAACAGCATGATAAACCATTTAGAGAATCAGTA rs7151741 981 TTTGTCTCTCTTCCCCTGCCAAAGAACAGTTGCTCACAATGGGCGTAGCCCCCTTCTGTGCGATGGCAAGGGTGAGGTGAGATAACGTGATCCATTTAAT[T/C]AT TTGGGCACTCAGTGGTTTGATTTTGAAACTTGTGCTGGAACCAGTGAATGTTTTGGGGTTAAACTCCACTGGCAGAGCAGTTAGTGATCCAAGAACTC rs6468296 982 AATCCATCTAATTTTTTCTCTGGTTTCAGTGGCAAATTCAGTTCCCTCCTGAGCCTAGAACCTTGCAGTACATTGTAGATCAGTTGGCTAGATAACTGAA[C/T]TTC CTGCTCATTCCTTTTCACCTCATTCTTGTCAGTTTCCAGTGCCCCATATCTGGATCTGAGCCCCATGGTCTCAGATGCTGAATGGGGCCCTGTCTGA rs2846589 983 ATTAAGGGAAAATAAAAATGCTTCTAGATCATTTCAAAAATTCAGAATGAAAGTAGTGATATTGAGTCTCACCTGAAAGCAAAATGTGTATTTTTACAAA[G/T]TATC ATTAGTGAAAAAAGAATGATAATGAGAAAGAGAATAATGAGAAAAGAATAATTAGTCCCTAAAATGACAATATTTGGGCACACTTGAGAAGTAATG rs3816551 984 TGGGGTGAGGGATCCCCTTCACTCAGCAGGGAGGGTGTTTCTTTTTCTATAAGTGATTGGGGGGGCATCTCTGGTGGAGATGGGATTCTCTGGTTGTAAA[T/C]T GGGTTCCTTTTGCTTGATGGGGATGGGGGTCTGTGTGTGTAGACTGGGTTTTTTTGTTTGTTTTTGTTTTTTGGTTTTTGGTTTTTTTTTTGAGATGGA rs6431221 985 CCAGACTTTGAGCCAGCCCAAACTCCACAGAAAGGAGGGGGCTGGAGAGTGCATTCAATCAGATGATCCATATTCAATCAGTCATGCCTGTGTGATGAAA[C/A]T TCCAAAAAAAGTCTGGACACTGAAGCTCAGTGGAGCCTTCAGATTAGTTAACACACTGGCGTACCAGGATGGTGATGCATCTTGATTCCACAGGGAGAG rs6582294 986 CGGAACCATTCCTCAGAACCACACCAAAGAACTGGCCTGAGCAGGAAGTTACCATGGCCACCACCACCCCCACATTAGCAAAAGGAATGAATCATCCCCA[G/A]T TTGTTTCTTGCTACAGTTCACCTCCACGGTTAAGTCTCACTTCCGCCTCTAACTTACAAAACCATAGTTACACATCTGCAGCTTAGCCACAAGGGAGTC rs3913810 987 TCCTGTGAGAACTCACTATCATGAGAATAGCAAGGGAGAAATCCACCCTTACGACCCAATCACCTTGCACAAGGTCCCTCCTCAAACATTAAGGACAAAA[A/C]TT CACATGAAATGTGGTTGGGGACACAGAGCCAAACTGTATCATCTGTCTAAACAAAAGTACTTTGGGTTTGATTGGTTAAAAAAACACAAAACTTAATT rs7769867 988 ACATTCTTATCATCATCCTGTAGAGGCAAATTTATTCCCAAACATAATCACAGATTACCAAAAATAAAAAAGTATAAGTATTGTCATCCATGGATAGGGA[G/A]TTTA TTACATTTGCCTTACAATGACCCAGATAAATGTAATGAGAATGAGAGAGAGGGGACAGAGGATATTATGTCTCCCAAACCTCTGTCTCAGCTACTA rs4674824 989 ACTTTGAAAGGCGGGACTCTCTTATGTAGTGGACTTAGAACTGAAGACATGACTTCTTAGTAATGAAACTGAAGGTAAGTACTTGTTTATACAACAAAAT[T/A]AAA AAGTTCTATACAGACTTCTGAATCATACTTTAAAAAAAAATGTGATATTACTGTAACCCTTACCTTCCCCTACCTCCCCAATATCTGCAGTCCATAA rs7294836 990 TCTGCACAGGTATCCTGGAACTTAAAATTAAAATATATTAAATTAGAAACAAATAAGGTTTAACTCCCTACCTATCTCTTTGAAAAGCCTTAACCATTAA[T/C]TGAGT CATGGCATTTTTAAATGGACTATTCAGTGGCTGTGGAGATGTGTGCTGTGTTTGCTTGGTTAAGCAGAAAGTAAGTTTTCAAGGATCTCCTGCCT rs6043856 991 TAAATTTAATATACTCAGTCTGGTTCACATATTCTAATAAAATCCAGCAAGCTTTAAAACTTTTATAGGAAATGTGCATTTAAAATCCATGTGATATTCA[G/A]TTTTTA CAGGGTGACGTCCTTGCTCAGGGTATTAAGTAGTTTCAGTGATGACGATGACCCAGCCTGGCAGCAAGCTTCTGGGGAAACCTCACAAATAGAC rs7741525 992 TTCCACTTTTTTTTTTTTTTAACCATTTAAGCATTTTATTTCCTGATAACCTCTTGGGGTGGAAGGCAGAGTGATATACTGAGACAGGCAGTAGCCTAAT[G/T]TATC TCCTCAGCAGTGACCCCTTCTGAGTGAAGAAAGCAGGTGTGACTGTCTCACTTTCTCACGGAAATAGAAGATTCTCATGTAGCATATGCAAAGACG rs7084321 993 CCAGCCTCTTCTGCCATACTGGGCGCTCACTCCCTGACTCACCATCTCTTGGCCTCACTGGCGGCCAGCGGGCAGGTTTCCCAAGCTAGACCCTTCTCCA[A/G] ATTGCACAGCTGCGTCTTTTCCCCAGGGCAGCTCAGCACCTCGCACGTCCTCAGCTGTGGTGCTTCTGTGGCCCAGGGATCCTGTGTATCCCAAATTCCT rs2723307 994 AAACTGACAAATGAATTTCCATCTTCGATATTGTGTTTTTAATTTCTATAATTTGCATTTGGCTCTTCTTTATAGTTTCAATCTCTGTGCTGAAAATCCT[A/T]ATTTAT TGAGGCATGTTTCCCATTTTTTCCTCTTGATCCTTTAACATATTAATTATGATCTCAAAAATGTCCTTGTCTGATCGTTCTAATAGCTGAATCA rs4589569 995 GGAAGCAGCCACTTTTCCCAGTCTTGCTGAGACCAAGTAACCCCAAACCCTGGCTCAAAAATACTGTATCAGCAAATACTCCAAGTAGAACCAACCAGAT[A/G]AT TTTCTGGCACTATCGTCTGAATGTATGTGTCTCCTCAAAATGTATATATTGAAATTCTAAACTCTAAGGTGATACTTCTAGGAGGAGGGGCCCTTGGA rs3912319 996 ACCTCCACATATGGTTCTCACTTCCCTTTCTTCTTCACTTCTAACTCATTCACCTCAGTAAGGTTTCTTCAACACTGCCCATAGACTCTTTCTTGAGGCA[G/A]TTGT TACTTTCTCTGTTGGATTTCTCTTTTTACTTACATCTGCATGGCCAGTTCTCTCATTTCTCTCACGTGATTATTCAAAAGTCACTCTCTGAATAAG rs2821312 997 AGTAGAGGTTAGACCAGAAGCAAGAAGACTGGAGAGGCATGTTTAGTACCTGCAAGAAGATATTTAATAACTTTCTTAGAGGAAAGATTCAGAATCACCA[G/A]TT ACATTGAGTTGAATGAGGAGCATTAGCCGTCAAAAGAATCTGTTTTTCCACTTGTTGCTTGGATAAATGGATAAAAGCCTGCCAAGGACTTCAGTCCA rs2820107 998 AACTAATAGAATATCAACCTAGTTAAGGCAAGATTTGCTGTGGGGAAGGGAAGGTCCTGAGCCTCTATTTGGCCCTGAGGCTTATCAACCTGATACTTCA[G/A]TT GGGCTCAGAAAGACTCCTGCCCCCTCCCCATTCCCTCCCTCCCATTGTGAGGGACCAATCTCTCTTATTCTGTGTTTTCTTACCATCTCTTCCACCAC rs7002630 999 TTTCCATGTATTCTCACAAAACCTCTCACAGGAATCCACGGATTCACTAGAGGTATGTGAGGAGGAGGAGGATGTTGATGAGGATGAAAACTGACATGCA[T/A]AT TTAAACTTCTACCTCTAGAAAGCACTGGCAAAAAGTAAAGGCACAAGTCAAGAACACGGAAAAAAATCAAGTACTTCCAATGACATTGGCACCAGGAC rs7041138 1000 CTACATTCATCCTTTCTCCCTTCCCTTCTGCTAAATCGGGTAAAGTATTTCCCTGGGAAATACTTCCCTCGGGCTCCTTCAGGCTTTAAATACCTTCAAA[T/C]TTCT CCCACGTTAAAAAAAAACTAAATATTCACTGAATCCTTACCTGCGGTTGTATCTTATCCTCCACCTTCACAGCCAAACTTCTTAAAAGAATTGGCT rs6019378 1001 AAACCCATTCTTCTTGGCTAGAAAATGAGGAAAGACCTGTTAAGTTTCTCAAAGACAGGAACTTCCTGAAATACGACCAGAATGGAAGGAGGGCTTGGAA[C/T]TG GCAGTCCGTCCATCCATCCATCCATCCATCCATCCATCCATCCATCATCCACCTTCCCAGGGTTCAATCATTCACTCGAGTGAATTCTATCATTCACC rs4815732 1002 ATTTGTATCTTTCTGTGAGTGCCCACTGGGCCCAAAAATGTCTTTTCTGAGCTTCTATGAAACGTGTGTTTGAAACTGTTCTACGTGAAACATGTTGAA[T/C]TCG GTGAAAGAAAACAGAACATCATCAAGGTTTTTGGCAGAAACCAGGATTTTATCTTTTAGGGCTGGATATTTGGGCAACATAGTGGGACCTCATCTCT rs4488809 1003 CTTGTATAGAAATAATACAAGGTACAAGGTGGGGCTGAAAAACACTGGACAAGCTAGCCCGGGGACTGCAGATGCAAGCATCTGCTCTTGAGGCAGTAAA[T/C]T GAAACAGTGATTCTTATTACTAGTTTCTGTTAAAGTTCCTCAAACTCTTTTACACAGAGATATATCTGACTCTTAGATGGCAGCTCTAAAATTTTGAAG rs4420719 1004 GCATGGCAGGGTCTTGAAGTAGATTTGTGGGAATTTCCCTGGGACCCTCAGGTCACATGACCATTTATTGGCCCTGCTCTGCAGGGCACCTTAGGTGATG[T/A]A TTGCAAAGGCAGATCAAGGGAAAGCAGATGTTGCCATGGAAATGGCCCTGCCCCCATTCATTATTAAAAGTTGTTGTTATTGTTGTTTTTTGGCAGCAT rs6488494 1005 GGACACCGAGGAACAAAAAGGTGGCGTGACTTGCCCAAGGATGTTGCAGGTTAGAAGCTGAGCCAGCCGTGGCTATCCATCCTTCAGACACCCAGGCCAA[C/T] TTGTCTGTACCACCTCACATTGCCTCAAACCCTGTCTGCAGTTACTGTCCCATTTCTTTATCATTTGGTCCTGGTATGACAAGGTACAGTGGAAAGAAAA rs2522215 1006 TGTACCCTTTACCAAAGCTAAACAAATTGCTACTTGCTGCAATCCCAGAGGGGTGGGGGTGGGGGTGCGGCAGGGGCATAGCGCCTGTGCTTAACTGTGA[G/A] TTATTAATGTGAAAGATTTGCATGTGCTTTTTATGATTATAGCTGACTTTGATGTCTTTGTGCCCTGCTCAGGGCTTCAACATACAACTATAATTTATTT rs6142841 1007 GTATGAGTGAAGATTCAGGAAACACTGGTTCATGTTGGTTCATGAAATGTTAGTTCCAGATATTCAATAAAAATGTGACGTTTTTAAGAGTTCTAAAAAT[A/T]ACTC GCACTTCTCCACACCGTTAAATGGACTCTCACAGCCTTGAATGAGAGAGCAAAAGTCCCAGCAAGGCCACCCCCTCCAGGTTCCCAAGGAACACCC rs4952502 1008 AATTTACTGCTGTTTCTTCATTTTTTTATTACTACATAATTAAAACCTACTGTTAGCTAGCACTGTGGAAAAATGTTGGTGTTATGCAGTATGCATTTCA[G/A]TTGGC TGCACAACCACCATCTCTTCTTCCAGTGACCCCGCTTCTCTGTAGTGATGTGGGTGCATAATTCTCAGACTCCATTAGGTGGCTGTAATCCACGG rs7820949 1009 CTCCTTTGGTCAAAAACTTGATATGCCCATTTTGCTTTTCATGAATCTTCAAGACTCGGTGAACTATAGGAATCTTTCTTCCTTCTATCCTTAGAACAGC[G/A]ATTT CTCCCACTCGTATGGGATCTTCAACTCGATTTGTTAGAAAGAGAAGATATCCTCTATGAAATGCAGGTTCCATGCTGCCACTGAGCAACACAATTG rs7076662 1010 GTTTTTGTGTCTGGGCCTCTGGGCCAAGCCCTGGACAATATTTTATGAGTTGCTTTCTACTGCTTAGTAACTTCTGTCCTTAAATCCCATCTTGAATGAA[A/G]TTA ATGTATTGCTTCATCCGCTTTCCTTGGTGTTTAAATGAGAAGTCTTTGCACCGTCTCTTTGTTTGGTGGTTCTGTCTTATCTTAGCTGGTATTTCTT rs4684986 1011 AGGCTAGTATACCACTGGGGTGGGGGAATGGGGAAGTAACCGAGGAGACCCCCATGTGAGGAGGCATGTTTACCATTGGGGTGGAGGTACATGAGGGAAA[T/ C]TGAGGGGACCCCCGTGTTAGGAGGCTTGTCTGGCATTAAGAGAACCACGTGGAGAAAACTGAGGGAACCCACATGGGAGGAAACTGATTTACCATTGGGA rs6707911 1012 TGAAACAGAAAGGAGTACATGATTTGTGGCCTGAGAAATGGCAGTAGAGACAGAATGTGGGCCCAGGTATGTAGCTGCAGTACTTTCTAGGCCATAGAGA[G/A]T TAGTGTCTAGGAAATAAGAAAATAAAAAGGAGCCCATTCTTCTCTAGTGATTCTTTACCACCAAGAGCTAATAAATGTGCATGGTACTGTTCTGACAAG rs4845519 1013 ATTATTGAATTTGATCATAGCCATGCAGACTGTTCAACTGAATTATAACCTCTAGGAATATCTTCATTTTAAAAGTGTTCATACTGTAGGCTTGAAGAGA[A/C]TTTA GACATTATCAGTTCTTCATTCACTCTTTCTGTGTCAGCAAGAAGGGGGTTGGTTTATTCAAGGATCCATAGTAAGTTTGTAATGGGATAATGACTA rs4420242 1014 AGGAGAGCTGGGATGATGTGGGCAAAGGGCGTTCAGGGAAGAGGAAGCAAAGCTAAGGGCCTAGAAATATGAAATAACCTGACAGATCCAGAAACAGGAA[T/G] TGGTGGGAAATATGGCTTATAAAGTGGTCTGGGCCTGCGCGAGAGCTCTCATGGCGTGGGGTGGAATCCACATTCTGTACAATGGGCACGGGGCAGCCCT rs7323716 1015 ACAGTCCATTCCAGTTGTAATGGCAGCCCTAGCCTAAGTTCTTATATCTTAGGGACAAAATCTAAACCAGTGGATTTCAAATCCGGCCGCACATCAGAAT[C/T]AT GTGGGGCACTTTAAAAACTACAGAAGTGAAGACCCCATCCAACACCCTCTGAACAGATTTCCGCTAGTCTAGATGATTATTGATTACTGTAGCTTCAG rs6878291 1016 GTTTGGATGAGATGTCATTTACTCTAGAGCGTTATCTGTGTAGCTCTGTAATTTCTAATATTTTCACTCTAAAACAGGACAGTAAAAAAACAGGTGAACA[G/A]TTAT ATAACATGAACCAAGATTCTATGAAGAGTTTTAAGCTTTATGAGGACAAGGACATCTTGCTTACAATTATCTTCAAATGCCTACCACAGTCTCTGC rs6897414 1017 CTTTGAGGTTTGTTTAAATGTTGCTTTCCTTTCTGGGTTTCTCCAGGTAGCTCCTCATCTTCAGTGTTCTCATTGCACTTTGTATTCTCTTAGCTTTTAA[T/C]TCTCA GGGACAAGGACTGACCTGGTTCAACTCTGTATTCTTAGGGCCTAGCAAAGTGCTTAACACATAGAAGACATTTGCTGACTTACAGTTGAATAGAA rs4452041 1018 CTTGTTGAAAAGTCCTTAGGAGACTCAGGGACATGAGAATAATGTGTCCAGTGACCATAAGGCTGTCTTTAAAAGAAGAACATCCTGTCAGTGAGGAAAA[T/C]TG CACCTTTGTCACTTGCTTTGCGTCAACTTCAAGGCCCGACTTAACTATTTCCTCAGCATTCATTTAGCACTATTTATTAAGCACCTGTTTTAGGTTCT rs7144509 1019 TTTTTTTTTAATGAGAGTTGATGGTATACCATCTTGGAGTGTTGTGATGCATGCCAAAATCAATGAGTTCATCTTCAACATATTGAAGTTCTTACTTTCA[G/A]TTTG GTCTTAGGAGTGCCAGTTGCTTAATCAGGATAAAGTACAGTGACTTAATTACAATGCCAAAACAGATAGGAAAATTAAATTCAAAATCTTAACTCT rs7845628 1020 GACCTAAAAATTTATAGTATTGATTTATTTTTTATTACATGGAAGATGCACCACTTTCTGGACATAAATAAATACATAAATAAAATATAAGCCATTTAAT[G/T]CCTCCT CTTTCTTCACATTTTTCCCAACCTCTCCTAATCTTTTGTTCTCCCACCTCTGCCTGTCTTATCTATGTCCTTGCTTTACCTCTTTCTTTCCTTA rs2903113 1021 AGGGATGCCTGAGGAGCAGACAGCATGAAGGAGGGCAGAACCGTCGTGGGATCCTGGTGACACTGTTCGCATCTGCATCTGGCCATCCCAAGCCACAAAT[C/T] CTGGACTTTCCCATTGATGTAAACCAATAAAATCTCCTTGCCTGAGCTACAGGAGGTTCTGTTTCTTTCAAATGCAGACAAAATATTTTGACAAATTACC rs7831906 1022 CAGCCCTCTTTCAAATATACTCTAGTCTAAACCCTTGATTTTAACCGTGTTATAGGGTTAAGTCTTTTCTGCTTCTGTCAAAAGCCAGGCTAAGGCAAAT[C/T]CATC AGGAAAAACAAGACTGGAAAACAAATGTAAACTTTATACTCTTTGAACCTCTTTAAACTTTATCCCTGTATTAAATTTGATCACAAGAAAAGCTCA rs6595267 1023 CACTGGAAGGAATAAATTCCAGACACAGTGGCAGCTGGCACTGTGCTGCTTACAGATCAAAGACCTACAGGATTACAAGTAAGGTTGGGTGGTGCCTTTG[A/C]A TTCTCCAGGTGGTCTTCTGTGTCAATGTGGAGGTTCCATGAATAGGAATGTAAAGGTCCATGGCAGAGGTGTGGATCCCTGGGCATCTAACTATCACTC rs4783152 1024 AGAAAAAAGTCTTCAAGCCTATGGTTATTATAAATCCTACACGCTCCTGAATTCAGTCATGCCAAATGGAACCAGAACCATGTTTTTAACCCTTTTAAAA[T/C]TGTG GTAAAATAGTCTGGGCACGTTGGCTCACGCCTGTAATCCCAACACTTTGGGAGGCCAAGGCGCGTGGATCATTTGAGGTCAGGAGTTCGAGACCAG rs7094883 1025 GGCAAAGGAAAGGGATGGATGCCCACAGCTCCTGTCGTGCAGCTGGAGCCTTGCAAAGCAACTTCATAAAGCCTGTGGACTGTTAACCTGCTGACTTCAA[T/C]T GAAAACTCTTCAGATGTTAAAAACAAACCTGTTTTGGGCTTAATGTCCAGCAAATGTCATGTTTTGCTAAAAGACAGCATGGCAGGCAGACCCCGGGGT rs2804649 1026 AAGCTCCCAACCTTTCAGCAGCTTCTACACACCCAGCTCCTGCCACCCAGTGGCCTCTTTAGGCCAAGCTCATGCTTCACAAGGGTCTTTCCAGGCCCAA[T/C]T TTTGTCTCATGGCAACCTTCCCTGGCCAGATTCCTGCCTGTCTCCCAGCAGCCTAGACAGGCCCAGGTCTTGCCTCACACTGGCCTCTCTACATCCAGC rs6569474 1027 CCATAGAGCCCCACTAAATAATATAACAGCTGGAAGGGATTTATTCATCTCTGGACACTAAGGAGTTAGGGCACAGTAGTTCAGTTACCTGGTTATATAA[A/T]TCT GGGAACCTATACAATGATTAAAATGGAAATGAGACCTCCAGTTACTGCAATGAAGGTAAATGGTTTTCCAGGGGAATTACACTTGGACTCAAAATCA rs4869315 1028 TCAAAATCTCCCCACTGGCGCATTTTAGGTGTTTTGATCATGAGTCACCAGGAGCTCTAAAGCACTTAACTGAGTCTGGGGATTTCTAATCTTTTCTGCCA[G/A]TTG TTTGTAGGGAAGTGCTCTGTGAGCTCTACCTCTGAGGCTCCATGCTCCCTCTGGCCCTCCCTTTAATAGCTTCTCTTCCACGGAGATGCAGTCAAGT rs2937415 1029 TCGAGGTAGGAGGTTGGTGTTTGATGGATAACTCTACTGTATAAAGTTAAATTTGACTGGTTTTCTATTTCTGAATCATGGAAGTGATGAGAGGAACTAA[C/T]TGA TTTATCTGAAGTCTGGATATGTAATAAAGTCTTCATGAACTGCAGTTGAATGTGGCTGCATTGTTACTAATGTACAGAATTTTTTCCATATTGGCTT rs7737946 1030 TTCTCTTCTCTCATGCAATCATTAATTCAGCGTTGCTCCAACGTCAATGAAGCCTAGTAAAGCTTCATCATGCTTCACGTCAGACTACACTGAGCTACCACA[T/A]TTA CATGGGATTAAAGAAAACTATTTGGGGCTGGACCCAGTGGCTCATGCCTATAATCCCAGCACTTTGGGAAACTGAGGTGGGTGGATCACGAGGTCAG rs4311632 1031 TTTACCCCAAGTCTTCATTTTTTTCTCCCAAATTTATTCACCCAAATTCTTTATGGTTTATTGGAAATGAAGTCAATATTTAAAGTGCTACATCTATGAA[T/C]TCAAA GTTCACATAAAATCTACATCAAAGACTGGAAGTAAGTAGGATCCTTTAGTGGTCTAGCTCATTTGCTTCTCCAAAAAGCATAATTTTTCATGAGA rs7356482 1032 GTACGTTTTGCACACATATCCATATTATTTCAGTGTATCCCTCAATTCTGAACATCAGCAATATAATGCCGCATGAAACAATCCTTTATCTCTCTCTAATAC[A/T]ATTGT CCCTGTGAACAGTGATCCACAGTATATATGTGTTCTGTTCTATCCTTAGCCCGATGACCTCTGTCTCCCCAGGAGCAGCCTTCTCGTCATTGGCA rs4928169 1033 TTGCTAACATAATTTCTTTATCTTCTTTTAATTTCCTTAACATAGCTCTCCTAAAACTATGGGTAGTACATGGGGTTTTGGGGGGGTCAGGTAAGGAATA[A/T]TTAC ATTTTGTGTGAATATTCAAATGATGCTTGGTAAAAATCTTTGATAACTTCTTAAGTGATTATTTCTCTCCTAAAATTCTTTGAATATAGGCATGTG rs4673821 1034 AACGTGCCCAGCACCTTGGCTCATCATACCACCGTCTGGCTTACCTGCTGCAGGTCACTGAACTCTGGAGTAGATTGACATCAGATAGCCTCTTGTGAA[T/C]AT CCCTAAAATGATGGGTTTCCTTTGAAAACTGCTAACTCTTCATACATTTCTACATATACTTTACTGCATTCTTCTGTGATTGAAATTTGCTTCTTAAT rs7588807 1035 AAAAAAAAAAAAAAAAAGAATATAACAACCATCCATGTAGACACCATTCAGGATACTGTTTCACACTATCTGGTGAGTAAGCATTGAAGTCTAATACAAA[G/T]TCTT AGTGCTGGTGAAGTGGAGAGAGGGCCTCTTACACACTGCTGATGGGCATGTTAATTGGTAAAACCACTTCAGAGAGAAGTTGGCAATGTCTTCTAT rs7679285 1036 TCCAGAATGCTATACAGTTGGAATCATACATACTGTGTGATTCCAGATAAACTTTGAGATAAACTTATTTAGATTAGTGATATGCATTTATGTTTCATCA[G/A]TTTTT AAAATACGATGATAGCTCATTTCTTTAGCAGTGAATAGCCTTCCATTGTCTGGACATACCATATTTTATTTATCTGTTTAACTACTGAAGGACAT rs7688917 1037 GAATGGCAGTAAATATTCCTTGGGTTTCACTGAAGTCTGCTCTAAATGCAGTTGAGTTTAATGATCAAGAGCTTGGACTCTAGCATCAAATGTGAGTTCA[G/A]ATT ATTTCTCCATTACCTCCTAGTTGACTAACACCTACTTTCTGACTATAACAACAAATGTTACTGATAACTATTTCTAGGAAATTCATTAATAACATAT rs4533845 1038 ATTCATCGCCACGGGGTGGTTCTTTTCCACCCAACAGCCTAACTCTGCTGCTGCTCCCAAGGGCAGAACAAGGACAGATAGGTGGATGTTTCAGGGAAGTAAA[G/T]T TCAGCTAAATATAAGGCAGAACTTTTACTAGACTTTTTAGAAGAGTCAAAAAAGGTATTGTCTTAAAAATGGTGGCTTCTGTGTCACTGGTTTTTAAGC rs7205009 1039 ATGTAGAGTTATTCCTGCAGGGCTGTGATTATAGGCAAATCATAGTGTGTATACCTTCTACCTTTTTTAGTGTATCTCCCACTCTTGTACCCCAGAAAAA[C/T]TAGT CTTGAGTATCCTTCCAGAAATGTTGTATTCCAGTCTTGTGTATCCTTCCAGAAGTATTATAAATATTATATTATTATCCTTCCAGAAAAATCAGTC rs7604667 1040 TCTTTTTTCTTCAAGGGCACCACAAGTCTTGGGTGCTGTGGAGAATTGCTGATTATTTTTTTCTCCCAGACATATAATACCTTGGTCCCTTATTGTTCAA[T/C]TGAT GTAGCCTTTTCCAATAGGCTTCTTCAGTACACTCTATGAAGGAAGCAGACGTAAGAGTCTATGTACGAGTGAAACTTACCCTAGGATACCCACTTC rs4442368 1041 AATGTCCAGGGCCAGAGGAAGCAGGACAGCACAAGATTTTATCTTGCTAATCAGAATGGCAGAAAATATCTCTTCTCTGTAGACAGAAGACAAGGTGGCA[A/G]T TCTAAAGAAAAGAGGGTGTTCTAATAATCTTTACATGTACTTTAGACCACACAAGGAGGTAATATATCATTATGTGCTTTTGGCTTCTCAGATATTCTA rs6575809 1042 TAGAGTCCCACACACTTACTTGTACTAAACATTAACCTGCATGTCCAGTCCTACCCAGTACCTGAGTCAACCTTGGAAAGATAAGAGAGATATCAGAAAT[T/G]TCA CCCTCACCAGCAAAGGGGGTGGAGGGAAGACTGTTGGGGGAGCTATTAGAGAGCATCTAGAACACCTTGGCTTATCATCTGATTCACCAAAGGTAAG rs6807437 1043 TCATAACTGTCCCCCACAAAAAATAATGACAATTGTGCACCAACCTCCTAACTTATTATTATTCTTTGCTGTGGTTCATGAAATCACAAAGTCTTAGAAT[T/C]ATTG CATTAAGGTACTGCCACACTTAGTCCATTCAGAATGCCTAGACTCCCATACTGGTGCTATCATTGGCCTCAGAAGGCATATAAAATGAAACTCAGC rs3902595 1044 CAAGGCCCAGGAACAGGATGTAAGAAGGGAGGAAGAAGAAAAGCCAAAGGGAATCCTCTTCCTGTGTCTTTAGGAAGATCCTGGAAGGTGCTGAAGCTAA[T/A] TACTTGGTGTTGATCTGAAGTTAGACACTTAGCTAGGGAGACTTGTTAGTATCTTTTTCTTAAGAAACCATGTGCTGAGCTAGAACTAGTACTGTAGTAC rs7763815 1045 AATGAAAAAAGGCAATGAGAAGTAAAAATGGAAAAGTACCAGTTCAAGCATGGCAGCCAAACATCCAAAGACTATCATTTGATAAAAGATTTACCTGAAT[T/C]AAC AGAGCTTTCTTGACATTGATTAGGGTGGTGAAAATGACTGTGGAGGAAAAATTAAGTAGATGATTCTATTTAGGGAAGAAAAGGTGGGAGAAGTGGC rs3010003 1046 AAGACTTTGTCTATCACAGCTCTTTCAAAGTGCAATGTTGGTGAAGGATGTTAACTGCAAGCTAAGAAACACACTGGGTGATTTATGCAGAAAAAGAATA[C/A]ATT GAAAGCACCCTAGGTATATGGTACGTTGTTTATAAAGAAGGCTGTGATAATTTCTCACATCCCTTGTGGACATGCTCCTTTACCATGTGATCTTCCA rs3902451 1047 TTGAAATATGTTTTCCAATTTGTTTGCTTTCTTCCCCTCCCTCTCAGGGATGCCGAGGATTCATAGATTTGGTGTCTTTACCTCTTTACATAATCCCACA[A/G]TTCT CAAAGGTTTTGTTCATTCCTTTTATTCTTTTTTCTTTGACTGTCTTATTTCACAGAACCAGTCTTCAAGCTCTGAGATTCTTTCCTCAGCTTGGTT rs4683161 1048 TCACTGGCCCTCAAAGCTTTTGCTCAGCATCTACTTATGGGAAAATGCAAGCTACAATGGTTGAACTTTCAGCTTCCATCAACTTGAGACATGTTCCAGA[G/A]TTT AAAATATTCTTCACTTGTATTACCCCTGTCCACAGGCAATGAATCTCCTGCTGGCCACGTGGCTAAGAGACTTGCACAGTCCTAGGATCCTTGATAA rs7691446 1049 CAAACTTTAACACCCTTCTCTGAACAATTGATAGAAAAACTAGATAGAAAGTCTGCAAGAATATAGGATGCAACACCACCATCACAAAAAGAGGCTCTAA[T/C]TGA TATTTACAAAACACTCATTGACATTTACAAAATATTACAAACAACATGCAAACATATATTCTTTTCAAGTGCTTATGAAACACATACAAGATAGACC rs4974594 1050 GATGGAAGCCCTTTGTCAGCTGTGCTGTGAAGGCCTTCTCCCAGTCCATGGCTCGTGTTCTTAACTTTCTTACATTGTTTTCTGAAGAGCAGAAGTTTTA[A/G]TTT TGATAAGGTTCAGAGGATGGATTTTTCTTTTACAGTTGGTACATTTTGTATCCTTCTAAGAAATTGTTGCCTGTCTCAAGGATGCAAAGATTTTCTC rs6139756 1051 GACAACTGTGACCCGAATTGTTGCAACAAATTATGATGTAATAATCCTGAGATCTAGCCACTTACAGAACAGAAGGGAAGACAGCAGGCTGCCTTGAAAT[C/T]GA GCTGGCAGATGTGGGTCATTGGGGGATGGGTATAATATGAGAGAAGCTCCTTGTGGCTCAGCTCAGAAAGGTTTGCATGTGTAATACCAATTATTCCG rs2889515 1052 TCAGGAGAAAATATTCGGAATGAATAGAATAGAGAGACTAAACGAATGGAATATAGAGAAAAGAGAGAATAACAGAGTACACAATGAGAAATGTGAAATATTTGATAAT[G/T]GAA ATCTTAGAAGAAAAGGAGTGAGAAAACAGGGGAAAATAAATATTTAAAAGAGAGTGGCTAAGAATTTTCAAAAACCTGATGAAAGACACAAAGCCTC rs6494229 1053 GCTAGCTGTGGCTCAATATCTATTATCCCCCTTCTTCCATAGCCAGAATAAAGACCATATTTTCCATCCTTTCTTGCAGCTTAGTGCAACTTGGTGACAAA[A/G]TTCT AGAAAATGAGATGTAACTACAAATGAAGCACACAACTTTCAGGTGGGGCCCTAGAATGAGGCTGACAATCTGCACTCCCAAGCCTATCCCACACCA rs4678766 1054 GTGCTTTCTATCTTAATGTATAATTTATAGAAAAACTAACTCCCTTTAGGTTTTGGCCAACTTGCTCATGCCGACAAAACTTCCTTTAAAATACCA[G/A]TTTTT CACAAATCTACTTTTTCTTTGGTTTTATTCTACCATTCTTTTAACTTAGGACAATCCTTAAAATCTCTAAATGAGACTGAATTACTTTCCCTTTA rs2984523 1055 TTATCTCTAATTCTTACAATAATTCTTTGAAGCAGTGATGATCATCCTCTTTTGCAGAGGCAGAGCTGAGGCACAAGGAGATAAGTAACATGTTTAAAAT[T/C]GTAT AGTTGCTATCTGAGAATGAAGTCAAACCCAGGTCAGTCTGACTTCCAAAGTCGAATTCTTTCCAATATAGTAAGTGCCTTTCCTAAACCATTGACA rs4130306 1056 GGCATGTAAACTCTACCACAAAAAGATAAATATCATTTCCAGCAGACAAATATATGAAAACAGGTATAAACTGATGGCTCGTACTACCCAGTGGAATAAA[C/T]TCT TCTGCAATAGAATGAATATGTTCTTCTATAAAGGAAAAGAGTCACATCATAGGGAAAAGAGCTTATTTGGTGAGCACATTTAAAGCTGAATGCGTAT rs4889072 1057 AGGAGCAAGATAACACAGGGCTTTCTGTTACCTTGCTTAAGCGGTGGGAGAATACACAGTAAGTTCCCTGAGGGCAGGGACTATGCATATTCTGTTA[G/A]T TTCTCCATCCTCCAGATCTCATATACTTCCTGGAACATATTAAATGCTTAGTAAATATGTGATAAGTGAACATGAGTGACTGGGAAGAAAGGGGCTTAG rs6005754 1058 CCACAATGAGAAGTATAAATCTACGAGAATACGAGAATACACTTCAAACTGGTAACAGTGGTTACTTCTGGAAAAGACAGTTTTTAAATCTTTTACATCAATAACTAA[T/C]TCAT ACATTACTTATGTAATGATAAAACTATAACAATAAAAAAACAAGTAGTATGGGAATACAGATGGCTGAGCAAATAACACTGTTCCCAGGGTTGCTG rs2734574 1059 ATCCAGATAGCGAGCTGGCTAGCAGCTGTCCACTCTCCAGCAATCCTGCCTTCTGGGGCATGGTTTTCTAAGGACCTTCCTGTTCCTAGATGATCAAAAT[T/A; A/T] GGGACCAGCCACTCCCTTCTGAGCCACTCCTGCCTCTGGGCCTGTGGCTATGTCACAGTCCAGTCACAACAGGACATCCCTTCAGAACACCCTGCAGGAA rs2734574 1060 ATCCAGATAGCGAGCTGGCTAGCAGCTGTCCACTCTCCAGCAATCCTGCCTTCTGGGGCATGGTTTTCTAAGGACCTTCCTGTTCCTAGATGATCAAAAT[T/A; A/T] GGGACCAGCCACTCCCTTCTGAGCCACTCCTGCCTCTGGGCCTGTGGCTATGTCACAGTCCAGTCACAACAGGACATCCCTTCAGAACACCCTGCAGGAA rs7725509 1061 CGTAACTTTTCCTGCACAGCCTTAGTGTCTTATGCAGAAGAAACATTCGGTAATGCCATTCATTGCTCTACACTTTTCTAGCATCTGATTGTTTAGAAAA[G/T]TATT GCAAGCTCGGTGCAGTGGCTCTCAACTGTAATCCCAGCAGTTTTGCAGGCTGAAGCAAGAGGACTGTTTAAGCCCAGGAAATCGAGGTTGCAATGA rs6592545 1062 AAATTTAATAAAGAACAAGTTAGGGATCCGATGATTTGACAGTGGATAAGGAAAAGAGAAGTATCTATCTAGGTTGAGACTCAGGTGGCTGGACTGGGGA[A/C]TT TACGATATGCAACAAGTTCAGAAAAGCTTTCATGTTGCTTAAACCTTTAGGCTTGAGAAATAAATATTTATCAGTTGAGATAATTAACAGATCCTGCC rs2676403 1063 CTGGGGGTCTCTTATAGATTCAGTCACCATCATTATGTAAACTGTTGAGGCCTTGGATAATGGTTCACTAATAGATAACTATTAGTTGCCTAAGACATTT[A/G]ATTT TTCATATTTTAAGATTATGATTTTCAGCACAGGTTAAAGTATGTGTGCTTTGGGGATATATGTAATGGAGAACAGAAAGAATCCACAACTCCTTTT rs2792780 1064 TCACTAACAAACTGCCTCCCCACCCTTCTTCCGCCCCTGCTCAATGCCCTGCACTTCCAGCTGCTGCTTTCTCTGCTTATGTAACAGCTTCCCAATGGCA[C/A]TT TCAGCCAGGATGGGCCTCAAATGACTTTCTGCACTAAATCCCAGACCTTTGTGTAATGCAGTCATTTTGCAACCAGCCTCCCCAAGCTTGCCAGAGCA rs9599645 1065 AGAAATAAATGACTTTGGTCATGATTGGGTTTCCTTACTTGTCAAAGTGAAAAAAAAATAGACAGATAATAATGTATTAAAGATGAGCCCACAGGCAAAA[G/A]ATT AGTCTGATTTGTATGTCCCTTCTCTCTGATGTCTTTTTAAGGCATTTGTAAAATGTTTTTAAAGAGGACAAGAAAACGGTAGCATTTTTGACAGATC rs10898954 1066 TGCTTTAAAAGTGAAATGTTTATGGTACTATGAGTGCAACAGAAAAGGCAGGGGTCAAAAGAGATCTGGGGTCTAGACCCAAGTCTTCTATCAAGGGAAT[C/T]GG CACTTAGAGAACACATACCAAGGACCAGGTGCTAGATTTCAAAATCTTTCTCTATTGCCCGCCTGGGCAGTGTCACCTGTAACTTTGAACTCCTGGGC rs9652080 1067 GGAGATTGGGCATTTCACAAATATCTGCAGAATAATTGTATCCATAAGCTATATACAAATATCTACAGATAACAGTTTAAAGTCATATTCACTTTTACTG[A/C]ATTA GCTTTTGGCAACACATTTTGTTTTTTATTTTTCTGTTTCTATAGTCACCAAACTAAATTCTTACCTATTATCTGGTTTCCCAAATAAGCCTACCTA rs9352730 1068 GCCTCTTCTGTGCATTTCTAGGCCTGTGGTAGTAACTAATGATGCTTTAAAAAATAGGTCACTAGTGTATATTTTGTAAAAAGGGATAGTTGTAGTATGA[A/C]TTG CAAGTCTTGGAGGTATTGTGTGTTGGGAGTCATACTAAGAAAGGAGGAAATTCTGTTATACAGTCATGTGCCATATAAAGGCAATTCTGGCAATGGT rs12818834 1069 ACAATGTTCCAAATAAATCAGCAGATTACAAATGAATAATTTTAAGACGGGATGAGATGATGTTGAAGATAAAGTGCACAATGGCAGACCATCCACATCA[A/G]TTT ACAAAGAAAAGATCTTGTCCACGACTTAGGTGAAGAGAGCCAACTATTAATAGCAGAAATAAAAGCCAACATTATAGACATCTCAACTTGTTCAGCT rs11835780 1070 CAAGACTACCATCCGCGGACTCACGGAATGCCGTATTCACTATCATGGTATTCCACACAGCATTGCCTCTGACCAAGGCACTCACTTTATGGCCAAAGAA[G/T]TG TAGCAGTGGGCTCATGCTCATGGGATTCACTGGTCTTACCATGTTCCCCATCATCCTGAAGCAGCTGGATTGATAAAATGGTGCAATGGCCTTTTGAA rs11105611 1071 TGTTTTTTCTTAAAATTGCCTTCAGTTTCCTTGGAAATGGAGGAATTTGTGGAGTATTTTAGTTATTCCCTTTCTGGCTGTGGCAACAGAAGGGCAGATC[C/A]ATTT AACTATTTATCTGCCCTCTCAACATATCTTCTAGTTATATTTGTTTTGTAGGCTTCAAACCTGTGAAGAGCCTTGACTGAGGGTTCTCATTTCTCC rs12450474 1072 AAATGGATTTACACAAAGTAAACATTAACTTTGGTAGATTTCAATGTAGAATAGTTCATAACAAGCATATTTGCCCTTCTGCTCAACTACCAAGTTAAGA[C/A]TTTTT CAAGTATTTTAACTGAGATTTTATTATGTTGACATTTGTTTCTCATTCCACATCGTCTTTGGCCAAGCGCCAGCACTTACAAGTCTCTGATTAAC rs9594249 1073 TGTTTCTTCTTGTCTCATTCATTTTACTATTTCTTATACCCATCACAGGGTCTGTACATTGCAGGCATTCAGTACTTTTTTTTTTAAATGAATGAGGCCA[A/G]TTCAG GTTCTAAACTTTTGAGTTTCTTCTCCATATTTCTTTTTGCTTTATTACTGCAATAAATTATTTCTTAAATTCTGTTTAATCAGAAGATTTTAAGA rs9285190 1074 TATTAAAAGAAAAACTGTTGAGGCAAAAAGAAACAAAACATTTCACCTTTTTCCCTGTAGAAGCCAGAGTGTGCTTCTCACAAAAGCCTGTGCAACCTCC[G/A]ATT TTATTCAAGAGCTAAAGAAACTAGCAGTCTCCAAGGCTCCAAGATTTAATTTCCATTGCATAGGATGCCCCTCACATCAGAATTAATCAGTTTTCAT rs17170027 1075 AGGAAGAACTCGGGGTGTGACCAGGATTTTCAAAAGCGGGGTCAGAGAGGAACTGATGGAAGAAAAGCTTATAGCTAGAATAGAATAGGAACTCAGAAAA[T/C]T GGTGTTGTCTTGGGCTTATTTTCTTTGGCATCTTGCTCACAAAAGGATAGAATGATCAAAGGATGGATGTCACCAAGAGCTAAGCCTAGGCCATTCCTG rs7899028 1076 AATTAGAACCACATATCTTAACTAGAACTACCTAGAACTAAAAGTACTTGTAAAAATATGGCATAGGGACCCCGTGAATCAGCAGGCTTAGTATTGGAAA[G/T]TAT AAACGCTCCAGAAATGGGGGCAGGGCATGTGACTGTGATTTGTGGCCAGGATTGAGAACACTGGCCTCCGTGAGCCAGGATGAAAAGCAGCCTCCTT rs11079666 1077 TTTAAAAACCAAGTAAACCCCTCTCATTGCACCCCCTGCTACTTCAGAGGAACACCTCCATTCTGATGGAAGGAACTCGTACTTGGGTCCTGGAACCCTA[T/A]TT GGGACCCAAACCTCTCCCACTTGTGTGGCCTGACGTGCCTGAGTGCTGTTTGTGTCCTTTTTATTATGTTGAAAACTTTGTTATTCCAAAGAAACATC rs12034424 1078 CTAAGCACTCTACACACTTGAGCAGCTTTTATTGAAAGAACTTTGCCTTTGAACAGAGGGTTTAACAGCACATTATTTCAGATATGTTCAGTCAATGAAT[T/A]TCAG ATTCTTTCTTGAGTAGCAAGATATATGAATAGAACTGAGTAAGGTTTCTACTTTTTAAAGAGTGCTGCAATGAACACTCATGCACATGTATCCTGA rs10276221 1079 TATCAAAAGATGAGTGGATAATGAAAATTTACTATATAGACACAAGAAAAAGAAGGAAATGTTGTCATTTGCGGCAAAGAGGGAGCCAGAAGGATATAAT[T/G]TTA AGTGAAACAAATCAGGCACAAAAAGATGAATATAGCATGTTCTCTTTCATGTGTGGGAGCTAAAAATGTTGAGCTTATATAACCACAAAATTGTGGT rs9886292 1080 TATCTCCCTATCAAGCCCTACCATTTCCTCGTTCTCATCATACCCATTATCCCTCAAGGGCCATAGAAACACCTCCCCTTGTAGGACCTAACACTTCTCA[G/A]TTC TTCCCAGGGAAGCAGATCCTGAAAGCCTTTTGGAGGTTTTGTGTCATGGTTATACAGGAAAGAGTATTTAGATTACAAAGTTACACATTGGCAGGGT rs9630712 1081 TGCCTATCATAAGCCTAGAGAACTTGGGAGTTAGTGAAATATAACATTCATGTTAATCAACCTTTTAGACATGGTTGTGTTGTGAAGTAAAAGCTGGAAT[C/T]CAG TATTCTCAGTTCTGTATATCATTATCACCAGCGGTGCTTTAAAGAGAAAATTATAGGTCTCTCTACATCTATCATACACCTCCTCAGATTCAATGGG rs10851704 1082 TTCTAAGCTCAATAAAGTGCCATTATCCTGTCGGTTATAAAAGAATGGTTTGGAAGATCCTTCACAGCCCACCACTCTCACACAAAGTTTGCCTGACAAA[C/T]TTT CTGGCCAAAATGGAAGGCACTAAAAATATAGAAGTTATTATCAGTCTTAAGACAATACCGTTATATAATAAATAAGACATTACCTAATTAAATTTTC rs10034384 1083 TTTGTGGCTGTGCAACAATGGGCAAGTTATTGAATCTTCTTTTTCATCACTTGTGATATGAAGAAAACATTATATCTACTTCCAAAGATTGTTGGGAAGA[A/G]TTAA CAAGCTATGCACTTTCATTGTAAAAGTGCCTGGATCAAAGGACTCACTCAATACGTGCTAATAGCTATTTTTTAATTTGCACGTAAGAAGACTGAG rs12442455 1084 GTGAGGACAAGGGCCAGTGTGCAAATATTTGCAAAGCAGGAAGACCAAAGAACCTGGCTCATGGAGACATCATTAAGTCAGTGATTATCCATTGGAAT[T/C]G ACTTACCTCTGGGCTATGCGTGACATATGAAACTCATTATTATGGAAAACACTTTTTGCTAGGTTTTGTGTACTTGCAGGTAAAACACTCTAATGATTT rs12439908 1085 ATGGAGGCAGATGCAGTTTCTCCTGGGCAAAGACTGAACGAATGCAGCAATTAAGGAGACCCCAACTCAGATTGGCCTGATGCCGGGTCCTGGTGCCCAA[T/C] TGTGTCCTAGCTCCAGGCTGTGTCACCCCGAGGGCCTGAGACCCATGCCAACAAGCCAATTTCCCTCACCTGTAAATGGGAATGCCATTACCTGTCCCA rs11221268 1086 CATGCCACCACACCTGGCTAATTTTTGTATTATTAGTAGAGATGGGGTTTAGCCATGTTGGCCAGGCTAGTCTCGAACTCCTGACCTCAAACAATCCAAT[C/T]GC CTCAGCCTTTCAAAGTGCTGGGATTACAGGCATGAGCCACCATGCACCACCTAGTTGATTTTTGTATTAAAAATGCTTATTGTCCAGTTACATGCATT rs9515625 1087 AAATGAGAATTGGAATCTCCCATACGCTGAAAAGAAGTCTGAGACCAAGAGGTGCCAGCTAATCTAACACCACACCGTGATTTACTAATAAGTATCAAAT[T/A]TTT AAACCTTTCCTTTGTGGCCTCATGCTCCATGAACTTTTACCTATAATAAAGTTATTTTTTCAAATAATATATTTCTATGTACTCTAGGGGATACATA rs9322744 1088 CTCTGCTGGATAACAAGTGTCAGCTGCAAAAAGACCCATGTCTGTCATACTGTAAACACTCAAAATAAAATAAAAAGCATCATTAAAGTATTTAGCCAAT[C/T]TCTT TGCACATCAAAAGTGCTCCATATATTTTAGTTCTGAGTTTACTTATGCTCCAGGTATAAAATTATCATCATTTGAACTGAAACTTTATGATGAATT rs9864594 1089 TGATCTCAGCTCACTGCAACCTCCGCCTCCTGGGCTCAAGTGATTTTCCAGCTATTCTCCTGAATAGCTGGGATTACAGGCGTGCCACCAGATCCAGGTA[G/A]T TTTTAGTAGAGATGGGGTTTTGACATGTTGGCCAGCCTGGTTTCACTCCTGACCTCAGGTGATCCACCCGCTGGGATTACAGGTTATCTTTTTTTTTTT rs9356029 1090 TCTTTCATATTATTCAAATCTAGAGCAGCTGTTCCTCCTCTAGGTACCCACAGCATCCTGGGCTTTCCTTTGTCATAGCATTTGTCACACCTCTTCAAAT[C/T]TGTT TCTTTATCTCTCTTGTCCACTAGACTCTTGCAGGCCGTATGATACTCTTATCTGCATGCCCAGTGCCTAGCATGGTACCCAGCAAATTGTAGGCAA rs10740169 1091 TGGGTTGAAAGGACATCTAACTATCTTTAGTGTTTTGTGCCACCCCGTCCTGCTTTCCTCTCTTCCTTACAGAGCACTTGGACAAGAATCCTCATATCAA[G/A]TTT CAGTTCTTAGAATCTAACGTAAGATACTTTCAATCATTATTTCCCTGAAAGAATTTAAGCATTTTCAAAGCCCTTTTTAATTAAAAATAAAAATGTC rs10964719 1092 ATTAAATATCTTCTCACTTTCAGCCTGTGTGTGTCCTTAAATCTAAAGTGAGTCTTTTGTAGACGTTATTATAGTGGGATCTTGTTTGGGTTTTCGGAAT[C/T]CACT GTATGTCTTTGATTGAGCAGTTTAATCCATTTACATTGAAAGTACTTAGTGGTAGGAAAGGACTTACTATTGCCATTTTGTTAATTGCTTTTGTCT rs10893402 1093 ATGAAATTTCTCACAGTATTCTTTATTTCCACTCTAAAATTACGGAGAGGTAATGAGTATAATACTCAATGTATTCATTCATAGTAGGCAATCAAGCAAT[T/C]GGTTT TCATTTACTTGGTTTGGAAAAGCTATAAAAACCTTTCTTTGTAATCATGGACTAATAATTACAAAAATTGTTTTGTCTCTGTTTCTATACAATAC rs10956363 1094 TTTCTCTGGTAAGAGCAAGGATACTAAAACATGTTTGAGTGCTGATGAAATTGATCCCATAGAGAGAAAAATGTTGAGAGTACTGGGGAAAAGGGGGATA[G/A]TT GTAAGAATGAGGTATTTTAAAGTGTTAGAAGAATGAGATCCAAAGAGCAAGAACTGGCTTGTCTTAGAGAGGAGTAGAGACAGATCTTCAATTATCAT rs11771935 1095 AGAGACAGAGTAACGTGTTAAATGATGCTGCAAGGATGCAATCAGCACCTCTGCAAGCCCACAGGACAAACACAAGTGTACAAAACAAGTACCAGCAGTA[T/A]T TTAAAACGACGGAGTGGAATCCACAAGAAACATAAGACACTTGGTATATAAACCTTATTTGGATCTCATTCAAGCTAGCAAACTGTAAGAACAGATATC rs10901705 1096 GAATTCACTTTTATAAGATACCCTTACCACACATAAAGCAGAATAATTTTATCTGAAGGTAGACCTGGATGATATTGTAAACTCTGAGAGCAACCACTAA[T/C]TTTT TTTAAAGGTGTGTAATGATATCCTGAGAGATTAGATAAAATAGAACCATATAAAATCTTCAAGTAAAATCAGAAAAGGCAGAAAAGAAACCCCTGG rs9989393 1097 TTATTATTATCAGAAACAATTTTTGTACTATGCTTTATATTATAATAGGTGCCCAAACATGTTATGCTATTTGTCCAAAAACACTCACCAGACAAAATAA[T/A]TCTTCT TAGTAGTCCCAGAGGCGTTATGCTTCAGTTTGTTTTTCTCCCTCTTTGCTCCCTGCACTTCATCAGCAAGTTTGTTCATTCTGCTTCTGATTCA rs10860857 1098 TTCCTCCCATGACATGTGGAGATTATGAGAACTATAATTCAAGATGAGTTTTGGGTGGGGATACAGCCAAACCATGTCAGTACCACTGATGATTTTAAAT[G/T]GAC TTTGTCGCTTGCCTTGGTGGTTCATAGAAGAGTGTCTGGATATGTTTTGAGCAATAAAGAAATGATTGGAAAAAGTACACAATCTCCCATGTGATAA rs11125229 1099 GGCAAGTCATCCTGCTCAGTGCCCTCAGAACATGCTTTTTTTCTTTCAGTATCTACAGTGCCTAGAACTGTGCCTGGACAAAGAAGACCTGAAGTACACA[A/T]TT GTTGAACTGAGTCTCTTTTAATGTCTAGTAAGCCTGGTGCTATAACTTTATCCTTATGCAGTCAGCAAATATTCGAATATACACTGAGAGAATCCCCA rs9992168 1100 AGGTGGCTCCTATTTAACCAAGGGCAATTCTCTGGAGAAGGGGGCACCTGTTCATTATTATCCCCCAAACCTCACATCACCCAGAGGATGTGTACACTAA[C/T]TG GTACTAGGGAACTAGGCAGAGCACCAGTTGCATCCACTATAGTCCACTCTTCATCTACATGCTTCTCTCATTAAGTTCAGTCCATCCAGACACAGCTT rs7900002 1101 CCCTGCCTGAGGATTAATCCTTCCCTGCTACAGTCACACAACTGCCTCCTTCAGGGAGGGGAGAGTGCTCAGCTACGTGACCCAAAGTTCAGGATGGTAA[T/G]T GATGTCAAAAAGAGGAAGAAAGTTTGCATGTAGGTAACCAGGAGTGAGATCATGAGAAATGCAGGGTCTTACCCACATTTGCCCCATCTGTGTATTCAG rs11685586 1102 GCTGAGCTGCTGGCAGAGGGGAGGAGGCTGTGGGAACCAAGGAAGCTACCAAAGTGAACTTGGGTCTCCGAACTCACCACAGAAGCGGGGACTCCAGGAA[T/ C]TCTGTGGCAGGTTGTTTCTTTCTCCCTCTACTTTATATGAAAAACACCTGCAGTGACCAACTCAAGACTATGAATGGTCATCACCGCACAATGACATGGT rs12158945 1103 GATGTATTCAAAATATATTTTTCTGCTTTACTATGTGATACTAATTGTAGCCCCTGTTCTGGGTTCCTTTTCTCATTTTCTTGCTTTCCTTTGCAGTAA[C/T]TGAGT TTTTAAAGTCATTCCACTTTTTCTTCTTTTAGTTCAAAAATATGCACTCTTTTATTCTAGTGGTTACCTTAGAAATTATAATATACATCATTGAC rs12903747 1104 TACCAACAGCTGGGCAAAGTTCCAGGACAAAGTTTAGGGCAGGTTCCCAGGCACAGAAGCAAGTGGAGTTGAGGCCATTAAAAGCAGGGGTCTGGTATTG[A/C] ATTGGCCAAGCTGTATAATGTCCCGCAAGTTAGTGAACCTCTGCAAGCCTGAGTTTTCCACTATGTGAAATGAGTTCATCATAGTCCCTATCTCACAGGG rs11249671 1105 TGTGTGCCCAGAGCAGGGCTGGGCTCTCATAGCACAGCGGCGGCAGCACAGACCTTGCAGCCCTGTGGAGCTGTTATTCTAGTGTGGGAGGAAATGACCC[C/A] ATTGTCTCGACGGTGGTCCTATCAAAGAAGTCGCATAGGGTGACCTGGATGAGTACTGTTGGGAGCAGAGGCCAGGGAACTAGGCTCCACGCTGGGTAA rs17079191 1106 AAGGAAGTGATGGGGAGGAAAATCATGCAAGGATAACTGTTATCTTGATTTCCCACCCTGAGATTGGGTGGAGGGGGAGCACAAACATACATTGGGGTAA[A/T]T AGAAATATATAGCAAATGCTACACTTAAGCTTGGAGACCATGGTCTTTCCAATTCAGTGAATTTTTTTTTTTTGAAATGGCATTCAAACTTTGTTTTGC rs10832561 1107 AAATAAGCACAGACTGGATTTTAATTTTCTAAACTGATGTGCCTTTTTAAATTGAATACAGAATAGTCTTCAAATGGAAAGGGCCACTTTTTTTTACTGA[A/T]TTAAT GTGAAACATACTACCACTTTATTGCTAGATTAAAATGTTAGACTAGAAGAAATAACCTAGTAGTTTGTCTCATAATATCAATTGAATTATATGAA rs11563997 1108 CATTAACCGGATATAAACTTCTTATTGGCCTTCTTGGGACTCAAATGCTGTACTATTCATCGAGTAAGAGCTTAGTAAACTTGAAGAGAATAAATGAATA[C/A]ATTG ATATAAAAGCCTTTTATGTTTAAGTGTTTTTAAATCTAATAGTGATTCTAAAAAAGAGAGGGGTAAATGATGTGTATTTTGCTCTAAGATTTCCAA rs10754776 1109 AGAAAATGAACCTTAATCTAAACATCACAACTCATACAAAAAGTAACTCAAAATAGATGATGGACTGTAAAATGTAAAACTCTAAGACTTTTAGAAAAAA[T/A]TCTAT ATGAGAAAGTATTCAGGATGTAAGGCTAGGCAAGGCATTCTTAGACTTGATATCAAAGAGCATGACCCCAAAAAAGAAAAAAATTGATAAATTAT rs7985274 1110 GCTCTTCCCTAAGGCCTCATCAGAACGAGGCCTTTATACCACAGAGGACACACACACCACACAGACTGGACATCTCAGAGGGCCCATGGCATGTTTTCAA[G/A]T TGCGGAGAGCAAAAGAGAGGCCATAGTTAGGACTGATCATAGTTCATCCTCAATCGTGTCAATGAGTGCAGGTAAGCCAGGCTGTAGAAAAACCAAAGA rs10234234 1111 TTGTAGAGAAATAAAACAGTGGCTGAAGGGGGTGTGCATGTCGAGAGAGAGAGAGTTTGAGAAGGGAAGTGTTGTAGCATGGTTGTATGTGGATGGGATT[A/G] ATTCAGTCAAGAGGGAAAAACTGATGATGCAGGGAAAAGAAGGATAGTTATGAAAGTGTTATCCTTCATAAGTGAGAGGGAATGGGATCTTGTGCACAAG rs9314663 1112 ACCTCCACCTGGTGGGGCCTGTCAGTGTACCACAGGTCTACCTTGATTTCAAGTCCATCTCCTAATAATGAAGTAAAATGTTTTTCCCTGCATTGAAGAA[A/C]TTT CCAGTGTCTTGGATGGGGGAGCTTAAGGAGCAGATGCTCATTCTTGGGGTATGGAGGTGATAACTTGTAGGCAGACTGTTCCTAGGAACACACGTAA rs10021843 1113 AAACAGTGCAGTGCAGTTGTTGATCTCAGCTGTTTTAATGCATGAAACATGTTAAAACATGTCAGTATTAACTGTGAACTTTTTTTGCAAGGGAGGAAAA[C/T]TGA GATAATATTCCTTTGAATCATGAACAACAAGTGGTTGATAAGTGCTATATCCCTGGCCAGCTTTTTTGTGTTGCTTCATAGCTGAGCCACATCAGTT rs11773909 1114 TTTAGAAACTGAAACTAAGTATATCTGATGTTGCTTTTAGGAAACAAGTAAATGAGGTCCTAAAAAGTTAAACTGTGACCATATTTTCTTTCCTTTTTCT[A/C]ATTTC TCCTTGGGCCATTTCCAAAAAGCCCTAATACCCCGACTGATAGAAATGGATACCTTGCTGTGCACTGGTACTACTGTGATTCATGGAAAGCTGAT rs11227624 1115 GCAGATAACCACAGTGGGAGGGAGGCTTCCCCTGATGGGCCAGCAGGGTTAGGGCACTCTCATTACCCGCTGCCTGTGCAGCAATGATCACAGCTATAAT[T/C] GAACAGGGAATGGCCTTCTGCCAGTCCCCCCTGATGACAGGAGATGGCTGAGGCCTTCTCCCTGCTGTGTCTCCAGCATGAAGCATGCGGCCTAGAACAC rs9838013 1116 TGTGAGAGCAAGGATTCTTTATCTACATATAAAATAAAACAAAAGTGGAACCATATTTTTGTCCCCAAACATCCCTTTGATACTACCATTGAGGTTTCAC[A/C]ATTA GGACAGTTTTCTTCCAGCACCCTCACTAAACGACACCCCTCTACTCTCATCTTGCACAATTCCCTTCCTTCCTCTCCAGCAAACATTCCTCTATTT rs9929404 1117 CAACCATGTTTACCAAATGATACTAAACAATTGATAAGATCATCTCCACATGGATAACAGCTGCTTATGGAGATGAGTAAGAGCAGGTGAAATGTTTCTA[T/A]TTC TATTCATACATGAGCAGATTAATAGAGAGCTAAAATGGTGTTCAGGGTCTTATGAGTAGCACTTTTGGTTAGGGTTTTCCTGTTAACATCCATTATA rs13255815 1118 GGGTTTCATGTACGTGTGGATGGAGGTTGGCTCAGAGATGTTTCCACATTTCCAGCTCTGACAGCTGTTGGTAATAGCTACAGCCCTGGTCCCCTGGAAT[T/C]C GCTTCCCTGCCTGGCCTGACCCTGCGCTGACAGTCAGCTCTTCTCAAACAAGCAGTCTCAATGATGATAAGCATCTCCTTGGAAGGAGAAGCTTCGAAG rs9987005 1119 GGTAAAAAATTAAGCTTGCATTTCCTTTTTACACAGAAGCTCTTCCACTAATTCAAGCCAATACATTTACAATAGAACATGCCAGAAAGTGCCACAAAAT[T/A]TCAA TAACAGGCAACACCACTAGGCTTCAGTGACCACTGATTTCATCCTCCTTCTCCTATATTCTTTCCTATAGTCCTTATACATCAATGTCATGGACTA rs11635372 1120 CCACAGGAAACTTCACAAAGGTTTACGTACAGAAGCATTTGGGGCCATGTCTGTCTTGGCTATGGGGACAGGTGGGGCTAAGCCGGCATCTCTGCTGTCA[G/A] TTGCCAGACTGCAGAGAGAGGCCCTTGCCTCCTTCCACAAGGTGTTTCCAATAAAGGGGACATATTTCCTTCGTTAGAAATAAACACAGACTGACAATAT rs12674093 1121 GAGGAAATGGCCATTTCTGAGGTGCTCAGAACCACAGGCTCACCCCTTTCACAGGGTTAGGATGGGAGCTGTTACAGGGAGTTTCCTGTACTTTAAAAAA[G/T]T TAAACAACAGAATCCAGCCTTTGCTAGCTTTGGGTACTGTAAATGATTTACTGTAACATAAAACACATCGAGTGAGAAAAATATAGAATAAGTTTTTTC rs10260483 1122 TTTAAGTGTCGTCCAAAAGAGATTAGTATTGGTCATAACATGGACTCTAAAGCCACCATTTAAATGAAGCATGTAAAAAAGAATATTCTAGTACACAAAA[G/A]TTAT TAATGGCCTAGAATGACCTCCTTCTCACTCATATGATGCAAAGAATAAAGTATATAAAAATGTTTGTTACAATGGCTATCCATAAAAAAGAAAACC rs11759755 1123 CATTTAAAAATGTGTTTATCAAAAGACACTGTTAAGATTATGAAAAGGCAATCCACACGGTGAAAGAAGATATTCAAAATACATATATTCAACAAAGAAT[T/G]TATA TCCAGTATATAAACACACACACACACACACACACCCTACAGATTAATAAGAACAAAGACAATCCAACAGCAAAAAACAATAGGAAATTATGAAAGT rs12783667 1124 GTCCCTGAAGATGTGTTGTTGAGAATGGATGACAAACAGTTCAGGTCAACCTTGAGTAAGTGTGAGGAAAAAATAAAAATAAATAAATGAAGGATGTAAT[T/C]GG GCTCCTCTCCTGGAGACTGAAAAGTAAGGACTGGCATGGAAATCTTTGATTTTTGGCAGTATATCATTATCTTTAGAGGTCTAGAAAAAGTGCCTACG rs9692857 1125 TTTACAACAGCATCCAAAAGGATAAGCTACTTCGGAATAAATTTAACCAATGAGGTAGGAAACGTGTACACTGAAAACTATAAAGCATTGCTAAAAGAAT[C/T]TAA AGATGATACAAATGAAAGAAAAGACATCCTGTTTTCATGGATTGGAAGACTTAATATTGTTAAGGTGTCAATACTATTGATACAGTTTGGATCTATG rs9428474 1126 CCTCCTGCCCGGTCCATAGAAAAATTGTCTTCCATGAAATCGATCCCTGGTGCCCAAAAGTTTGGAGGCCACTGGATTAAAGGAGACAATGTATGTAAAT[T/C]TT GGCTTATAATAAGTTCTTGGAAAGTGCTAGCTGTGTCTTATCACTGATTATAGTATCCCAATCAAACCTTGACACTTGGGTTAGGATTATTTATTTCC rs16830436 1127 TGTGTGTGTGTGTGTGTGTGCGCGCGCGCGTGTGTGTGTGTGTGTCCACTGGCCTTTTCAAAGTCTCTCTTTTGTTTTGCAACTTTGGCTTTATTTATAA[T/G]TTA AATCTAGACATTTCTTCTTGTGAAGTCCATGCACGCCACTCTTGGGACATCCCTATGTTGCAGCAGAGGATAAAAATGGAAAATTCAGGGTCCTTAA rs8063107 1128 CTGAATTCCTGTAAAGAAAGGAGACTCATATCCTGAAGAATGAAGACATCAAAAGCAAGGTGCTGTGGCAAGTTAGCCCTTGGTGGAGGGTTTTTCACAA[C/T]TG GATATCCTGCTGTGTAGAACTGAATACCCACAGCAGGGTTATTCAGGCAGCTCCAGGGATGAGAGAAAGTGTCTTGACTGATACATAATTTATCTGTC rs9818611 1129 AGAGTTACTGTTGCTCCACGTCCTACCAGCATTTGGTGTCAGTGTTCTGGATGTTGGCCATTCTAATAAGTATGTAGTGCTATCTCATTGTTGTTTGAAA[C/T]TGT ATTTCCCAGATGCATATGATGTGGAACGTCTTCTCATATGCTAACATGCCATCTGTATATCTTCCTTGGGGTGTCTGCTAAGGTCTTTTGCCCAATG rs10840805 1130 TACTTGTTAATACTCCAATTACTTCCCAGATTAAGAGATTTGTTTCTCTACAACAAATATTTGTACCTACCTTGCTCTGAGAAACAGCCTGCACTGTGAA[C/T]TCAT TTTATCAACAACAAGACTGCTTAAAAGCAGGAAGAAAAAGCCATAAAAAATGATGAGTTCACGTCCTTTGTAGGGACATGGATGATACTGGAAATC rs10421748 1131 GAACCCCTTCCTTGCCCCTAGACAAGCCACAGCTGACCTGCTGAGCAGCCTGGAGGACCTGGAGCTCAGCAACCGACGTCTGGTTGGGGAGAATGCCAAA[T/C] TGCAGCGGAGCATGGAGACAGCTGAGGAGGGGTCAGCACGCCTTGGGGAGGAGATCTTGGCTCTGCGTAAGCAGCTTCACAGGTGGGCTGGATGCCACAC rs10139699 1132 ACTAAACAAATGTATTAAATGTTCCTGGCTCTGTACACCATCCTTTAGGTAGAGAATAATGGCAGGCATTTGGGTGTTTCTCAGGAGTTCCCAGCAGAAT[C/T]GA CTACCTTTGCCCAGAGCAGTAATCTTAGTAATGCACACACAAGTTGTCTTTTTCTCCTCTCCTGCATCGTTAAATAAACTACAAATATATGAGTAGAA rs12107918 1133 ATGAAATGGATTCACATTTTTAATGTTCTATGTAATTACTTATCATTGTTGTTTTAATAGGGAAAGTATTGGTTATATAAATAGCCAAGAAAACAGCCAA[C/T]TGAGA CTTTTCTTCCTAGATTACCTTGGTTATATCAGTGCTTCTGGGTGTGGTCACTGATATTCTACAGCAGAAACAGCTAGTGGGGTCCCCAACTAAAG rs10884498 1134 GATGGCATATGGAGAGGACTTACAAAAGGGCTTCGGAAATATTTATTATTATTATACAATAATACATGATATTTTGTGACGGTTAATACTGAGTGTCAAA[T/A]TGAT TTGATTGTAGAATGCCAAGTATTGATCCTGGGTGTGTCTGTAAGGGTGTTGTCAAAGGTGATTAACATTTGAGTCAGTGGGCTGGGAAAGGCAGAC rs10822434 1135 AGAATGTATTTATTGATCTGTGATATCTATCCATACACCAATAGTAACTATTTTATATAAACTACTTTTTTGAAAAGTCTTGACATAAGGTAGTATAAAT[T/C]CTGTTG CTCTTCTCTGTTTCAGTATTTCCTTTGCAACCCTCTTTAAGATTGCCTTTCACTTCTATGTAAGTTCTCAAAAGAGGTTGTTAATTTTAATAAA rs12607335 1136 AATATAAGTGGAATCATAAAATAGGTGGTCTTTTTTGGCTGGATTCTTTAATTTATCAAAATGCTTAGAAGGTTCATTTATGTGGTAGCATGTAGCAGTA[G/A]TTAT TTCCTTTTGTTGTCAGATAATATCCATTGCCTCAATAGACCACATTTTCTTCTCAATTTATCACTTGATAGACATTTGAATTATTTATACTTTTTG rs7915178 1137 CAGAGCTATCACCTAAAAGCATCACATGGACATTTAAAATTCTCAGTAGAGCATTTTTTCCTTCTAATGAAGCTTTCCTAAACCTGTGACATTGGTTTAA[T/C]TTGT GCAGGAGTTTCCTCCTTGTATTTGTTTAAATGCCCCCAGAAGCTCGGAAAGCAGGAAGTGGTTTGAAGGGGATTCAGACAAGGTTAGCTGGGGAGG rs10953770 1138 GTACAGTGAAAGCACTTCAAAATCTTTCAGGTGTAATCATAAGAAATTATTTATCTTAGGATTCTTGATATATTACATCGAAATCAAGGTTTATGTTATA[T/A]TTGAG TAAAGTTTTCAAGGATGAAAACGATTTTGCCTATTTTTTTCTGAAGAATTACAAACACCTGCTTCTTTCATCTTCCTTTGACACTCTGTTCCTGA rs11099210 1139 GCTCTGGACCCAGCCACGCTGGGAGGGAAACCACCTGATTTCAGGTACAGAACCACTCTCATGTACCCTCTCTGCTGAGAGTTATTCCATCACTCAATAA[A/C]A TTCTTCTCTGCCCTCCTCACCCCTTGATTGTCAGTGTAACCTCACTCTTCTTGGACGCTGAACAAGAACTGAGGAACTGCTGAATGCAGGTACAGCTGT rs10785736 1140 TACTTCAAATAACATCTACACTTTTTAAAGAAGAAGATTCAATCTCAGAGAAACTGGTTTGGTTTCTCAGCTGGGAATATTTATTTGGTCATACTAAACA[A/G]TTGA GCCAGTGGATCAGCAGTAGCTGATTGCAAGATTCTTAAGTAGACACACATTACATTTCGTAGGGGATCAAAATATGTCATTCTCAAGTATGCTAAT rs11221881 1141 CCATCTCTAATTTCCGGGAGATTTATAATTTGTTTGTATTATTTTGTGAATCATCCGTTCATGTCTTCTGCCTATTCTTCTACGGTCTTTTTCTTATCAA[T/C]TTGTAA AGACTCTAATGTAATAGCCAACTGCTACAAGCATGTTTCTGATTTGTTGTTTACCTTTTGATGTTCTTGATATTAAAAGATGCTTATATAGCTG rs11727770 1142 CTCCACATCTGTCTACTTGCTTGTTGACTATCTTACCCCCTTAGGCTATAAGTACTCACTGATCTGTCTCAAGTGTCTGGTTCATAGTTAAAAGTCAATA[A/C]TTAC GTGATGAATGAATGAATAGATGGAAAAATCAATGGATGGGTGGATGGATGATCTTTACAGATTAACTTGAACCAGATCATGTAAGGAGCTGTTTAA rs10102733 1143 TTTAGCTTCATGATTTAACAGGAATAGTGTGAGGTAAAATGACATGAGTCACTTAAAGCCTTTCAGAAGGAGAAGTACCAGCCTTGATGTGGGGAAAAAA[T/C]TG GTCATGGTGGCTCACACGTGTAATCCTAGCACTTTGGGAGGCCGAGATGGGCGAATCACAAGGTCAGGAGTTCGAAACCAGTCTGGCCAACATGATGA rs10030074 1144 CAGGACTTTGGGAGGCCAAGGCAGGTGGATCACCTGAGGTCAGGAGTTCGAGACCGGCCTGACCAATATGGAGAAACCTGTCTCTACTAAAAATAAGAAA[G/A] TTAGCCTGGCCTGGTGGTGTGGGACTGTAGTCCCAGATACTCGGGAGGCTGAGACAGAAAAACTACTTGAACCCGGGAGGTGGAGGTTGCAACGAGCGGA rs10510379 1145 TTAGCCAGGATGGTCTTGACCTCCTGAAATTGTCATTATTTGCTTTTAATGTGGATTGCTTTTATGAGAATAACTATGAGCTCATGGATTTTATATAGTA[G/A]TTGT CACGCATGTCCGTGTGAAGAGAGTCCACCAACAGGCTTTGTGTGAGCAACAAGGTTGTTTATTTCACCTGGGTGCAGGCAGGCTGAGTCCAAAAAA rs13110085 1146 TGCTGTGGTTAGGAGGTATAACTTGGTTAAGTGTTTCTACCCACGCGTAGGCTATGGTTTACATAGCCTATGCACACATAGCCTATGTGTGCATAGTTTA[C/A]ATT TCCTACCAGCCCCCCAAAAAGGGAACACTTGCTTTTCTTATCAACTTGCCCAAGATGTGGGGTAGAAGGGAAGGGGCAAGTGGTAGAGCTCGCAAGC rs13269702 1147 TACTGTTCTCAAAAGGCAAAGTCCTGTGTAGTTCATGACTTCTGTGGACCATACAGAGATAAAAATAAGAATGGAAAGTGATGAGATTTCTATCATACAA[A/T]TGT CATTTCCTGTGAAAAGGCAAAGATGATTTCAAATAGTGAACAAGCCTAGAAAGTTTTTAAGGGGCTTTGGAACATGATAGAGACACACAATCAGACA rs9312864 1148 CTGGCCTACAATTTTTTTAAAGTGATAACATGAAGAATAAAAAAGCTGACAAACTGTTCCAGATTAAAGGTAAGTAAAAAATCATTATCACTAAAGGCAA[T/C]TTGA GCTTTCGATTTGGCTCAGGATTGTGGGGAAAGGAGGTGGGGTGGGGAAAAGAGGTGGAGGACATGAGTTGCCACAAAATTATTGAAACAATTGGTG rs9787011 1149 GATAGTCCTTAGGCCTTGAAGTCATTAGAGGTGCAATGCTGTAGGGCCAGAATGGGTAAAGGAGGGAAGGTGGGATAAACAAGGGGGTTTGTGGTGAAGA[C/A] ATTCACTTGAAGGGGCACTTAACATGTTATCTGACCTGTGATAAGTGCTCAGTATTTGCCAATGGATGAATTATGACTGAATGAATAAAGTCACAACCTG rs9555581 1150 GAATATCTTTACATTGATTTCCTGATGCGCTACATATCACTGCATGCATTGAAACCTGGGATACACAAAAAAGTTATGCTGAGGTATCATCTCTAAGAAT[C/T]CAAT ACAGGAGTGAGGTCGAGATTGCCTTTTGAGAGTAAATCCAGAAGCCAACTTAATAGATCAGAGCAGAATTAAGGCAAAATTACTTTAGGATAATGG rs8016543 1151 AATGAGGATGATGAAGGGAAGTGTCTGTGCAGGGCTTTTAACCCTTCAGGAGTTTGGCCCAGTTCATCAGAGAGAAAAGGGAGTAGGTACTTGTCACAAA[G/A]T TTGGCTTCAGTATCAGGTTTTCATATGGCTGGCTGGAACCTGTATAAGGACCCAGGAATGGATAGAGCTACTTTGTAATGAGAGACTTTGACACATTTG rs13155942 1152 CTCTGTGATTTTAGATTGTGGGTTTATATTTGCTGGCATGCTATCTCTGCGGTTTCTTTTGAGGACTGGGTTGAGGGTACCTTTCTTTCTCCAGGGATGA[T/A]TTG TGTTTGCTTTTGTCAGACACTGAGCACTACTGACATGAATCCTCTTAAAAATACAATGGTCAGCCATATAAACTACGTAAACAGTGTAGATTCAGTT rs11655850 1153 TGCACAGTCACCCTGGAGAGAACCATGCCACAAGCCCAGATCCAGGACACACTGTCATGCAGGCTTCCTTCCCCACCACTCAGGAAAGCAAACTGCTACA[A/C]T TAAAAAGGAACAAGGGCAAGTCTGGTGCTGCTCTTCACTGGGATTTTTTTCTTTTTTTTTTTTTTTTAAGACAGAGTCTCACTCTGCCATCAGGCTGCA rs13331222 1154 ATAAATATATAATTTAACAAAAGAGAATAACAAGAACGAAGTAAAGGAATACATGTGGGTATGTGTGTATCTATGTAAAAATGGAGAGCCATGAGTGAAA[T/C]TGT ATACCAAAGGAAGCAACGTATATTCTTAAAAAGGAAAAAAAAAAGACATGAGAATGCATTGGTCTTCCGTGAAATGTAGCTACTGTAAGGTTTTTAT rs10110766 1155 GGGCATCTTTCAGTTAGTACGTGGTACTGGACAAGAGATCAGGTTGAACTGTAAGGCTCTAGTTTTCAGCAGACTCATGGTCCTGGGAGAAAGAAAACAA[C/T]T GGACAGGGGGCTATCAAGGTAGCCAGGTTTTGAGGGGACTCAGTTCAGGAGAAAAGAACTGGAAAGCAGGTCCTGTGCTGCTTTTCTCCTTGAGAAATT rs9554894 1156 CATTCCTTTCCATTACATACTTTCTTTGTCGACCTGAGTTTTCAGCCGTTGCTGAAATAAAAGCAAGTATTGCACAAGAATCAGTTTGGTGTTCCATCCA[A/C]TTCC AAAGTTTGAGTTGTGTCATGCCCAACAGGCAAACACACCTCACTCAGTAATTGTGGTTAAGAATGAAATAGGCGCAGTGGCTCACGCCTGTAATCC rs17152417 1157 AAACAAACAAACAAACAAAAAAACCCATAATTCAGCCCACCAGTGGCCTCAGGTTACTGTGTGTACAAGGTGTTTGTGGGATATTTCTGGTCTCCCACAA[T/C]TT CAGCTGATGTCCAGAGTTAAAGGGCTCTAAGTAAGTACCCCACCTTCTATAAAGTGTTGCTAAGGAAAGCCCTCAATGCTAAGGCTTTGATACAAAAT rs17156383 1158 ATAGACATTCACTAAGATATTGCATCTATGAAAAATAATTACACGCTATGTAAAAGTAGCAATAAAAATAAAAAAAGCTACTGAAAATGAAAATGTATAA[T/C]TGAC AAACATAAACTGCATATGAACTTTGGAAGAGTAAATAAAGTATCCTGGAATATAGAACAAAATAATATAGAGTAAAAAAAAAGGAAAAATCTTAGA rs11017936 1159 GGAACCAAGTCCCATCATTGCAATATCTCTCTGGATTCCATTGTAATCCATTTCAGACGCAGCCACACGTGTTCATGAACTCATCAATGCAATCTGGAAA[T/C]TTG ACTTTGGCTTGTGATCTCTGACATTTTGATGTTTTAAAGTGGGTTTTCTGGAGTGGAGTCTTGGGCCTCCCTCTCACACTTACGGAGTCTTCCTATG rs10777944 1160 CTATTTGCTTGTGTCCCTTCATCTCCTGCTGGACCATGAGCTCCTGGAGAGCAGGGATGTGTGTCTAATGCATGGCAGGCACTCTATCAATACAGGAATG[C/A]AT TTTATGTGGAATCTGACTTTTTTCCTCAGATGTGGAAGCACGCAGCAACAAACATATGTCGTGAATCAAAAACCGGGACATAAAGCCTCACACAGGGT rs10278812 1161 TTATTTGTGAGCAGTATTTTAGTTTTAAATGGTAGATATTAAGCCTGTACAATGATATTCAAACAATGGTATATTGAATGGATAGAAGAATCTGTCATAA[A/T]ATTAG AGTAATGGTTTGAAAAACCAATGTTTGTGGAGATAGCAGTCAGGGTAGTTATGGGGAGAACAGAGACTAGAAGCTGAAATTACAAAGTGATCAAG rs10784847 1162 GGCAAGACAAAGGAAAGGGAGTTCAGCCTTGTAGGGGTGGTAAATTGTGGATTTTCCTGGTATGAAAGAGTGAAGGGAGGACGTTTTCTTAAACAAAAAT[T/G]T ATGCCCTGCTTTCAAGCAAGTAGGGGGAGGGCACAGAGCTTTTCTGTGCCTGCTATTTCTTGATTGCCTTCAGCTTAAAATAATTCTTATGTCAAAGAG rs10179379 1163 TACACAGGGCAGACATGATGGTGGCTTGGCCCAGTGTGGTGGCAGCAAGGGTAGTAGGAAGTGGTTAGATTCTGGTTATATGTTAAAGATAGAGCACCAG[C/A] ATTTCCGGACAGATTGGATGGGAGGTGTCACTAAAACAGAAATCCAGGGATAACTCTGAGGTGTTTGGCCTGAGTTATTAGAATGATAATATTATATTTA rs17074340 1164 AATGTGGTGGCCTCACACTAAGACGTAGAGAAGAAGAGAACCTAGAGTCAATGAAGCTCATAAAATGCTACTCCAACAGAGGAGGTGACATAAGTAAGTA[A/T]TT CCATGGGAGAGGGAGGTCAGCAGTGGGGATAATGAAGAAAGGAATATTATAAATACATTTTGATGGAAAAATGTAAAAGGATAAGTCATTAATTCCCT rs1297215 1165 ATTTGCTATCTCTGGATATCTAGCTTATTTCTAAAAACCTCTAGTGACCATGAACTATCTTCCAAGGTGGTCTTTTGGAGACGGATGGCTCTGGGTTCAA[T/C]TTA TTCCGGCTCTACCATTTACCAACTCTTTGATCATAGGAAAGTTGGCTACTCTTGAAAGTTTATCATTATTAAACGTGCAAAAGCACTAATACCTGTT rs1041409 1166 ACCATATTAGTAAGTCTCCCCTGCATTATGGTGTACTGTTAGTGTGTCACTCATATCATATCAGATTCCTTAAACATTTGTTTGCATAAAGTCCCCATGT[A/G]ATTC TATTCCCCATAGTAAGTACCTGCTTCTCTAGCACCATGTACTATGTACTATGCACAAGTAGCCAGAATCAGATTTGTCTACAGAATTGGAGAACTA rs2826737 1167 TTTACCAGGAATTGTGATACTTCATTTATACACATACTTTATTTAATCCTTACCATGACCATAGATGACTTACATATGCTAAGAGCCAGGACTCTAGTCC[G/A]ATTC AAATCTGTCTGACCCCAGAATCCTTAGCATTTTCAATGTGTTTCTGGAAATAGCCTTACCATAAACCGCAGTTGCACTTTTTACCACCTAATGTGT rs2834712 1168 GGACTTACAGTCTCATTCAGGAAGACCTTGACAAACAAATGCTAACATAAAAACCACCAGACTGCTATTTAGCCATTCTGTCTGGGATGACTATATTAAT[T/C]ATT TTATGACAGCGTTTCTTTCCTTCTGAATGGTTGTTACCAGCGAGGTACCTTTTGCTCAATGTTTGCTTAAAGACATGTCTATATATTATCTGGCAAG

Conditions Used for Testing

PCR

PCR was performed with or without the addition of Tsp509I to the PCR cocktail mix as indicated in Table 12. PCR cycling was performed for all samples with the cycling conditions in Table 13 to allow Tsp509I digestion of the DNA immediately prior to PCR amplification and in a single tube. This was used even if there was no Tsp509I added to the cocktail.

TABLE 12 Volume per Reagents Final Conc reaction (uL) Water n/a 3.125 10x PCR Buffer 1.25x 3.125 MgCl₂ (25 mM*) 1.625 mM 1.625 PCR Nucleotide Mix (ACGU) 0.2 mM 0.5 F/R Primer mix (0.5uM) 0.1 μM 5 10U/ul Tsp509I 0 or 0.02U/ul 0 or 0.05 1U/μl Uracil-DNA-Glycosylase 0.05U/ul 0.625 HotStar Taq (5U/uL) 0.2U/ul 1 Total volume n/a 15 DNA - added separately varies 10

TABLE 13 30 C. 10 min UNG digestion temperature 65 C. 15 Tsp509I digestion temperature 94 C. 15 min Taq activation 94 C. 20 sec 58 C. 30 sec {close oversize bracket} 45 cycles - Amplification 72 C.  1 min 72 C.  3 min Final extension  4 C. Forever Storage

SAP

SAP dephosphorylation was carried out with standard conditions including the SAP cocktail preparation below in Table 14.

TABLE 14 Table 14. SAP Cocktail preparation SAP Mix Reagent Volume per Reaction Nanopure Water 2.95 μl SAP Buffer 0.34 μl Shrimp Alkaline Phosphatase (SAP) 0.71 μl (1.7U/uL) Total Volume   4 μl

TypePLEX Extend

TypePLEX Extend reaction was carried out with standard conditions including extend cocktail preparation below in Table 15.

TABLE 15 Table 15. Extend Cocktail Preparation Volume per Extend Reagent Reaction Water (HPLC grade) 1.24 μl TypePLEX buffer (10x)  0.4 μl TypePLEX Termination Mix  0.4 μl Extend Primer Mix (3-tiered 5-15uM stock conc) 1.88 μl Thermosequenase (32U/uL) 0.08 μl Total Volume   4 μl

Digestion of Heterozygous SNPs in Genomic DNA

CEPH genomic DNA obtained from the Coriell collection was used to test the ability of Tsp509I to specifically digest one allele of each SNP. The informative allele peak area ratios of DNAs heterozygous for the indicated SNPs were determined. The informative allele, alternatively called the target allele, is defined as the allele NOT recognized by Tsp509I enzyme. Tsp509I treatment significantly increased the peak area ratio. With no Tsp509I treatment, heterozygous DNAs show median allele ratios ranging from 0.4-0.6 depending on the SNP. After Tsp509I treatment, for the majority of heterozygous DNAs, the median peak area ratio is above 0.8 with many peak area ratios at 1.0. Peak area ratios of 1.0 indicate that there is no detectable non-informative (i.e., non-target) allele peak area present.

2% Mixture Model

A DNA mixture model was prepared from CEPH genomic DNA obtained from the Coriell collection. The DNA mixture model was used to test the ability of Tsp509I to enhance the detection of one allele of a SNP when present at a low fractional concentration. Briefly, the DNA mixture model comprises 47 unique child/maternal DNA pairs mixed together such that the child's DNA (the low fractional concentration DNA) is present at only 2% of the total DNA. For the studies here, DNA was added to the PCR such that there were 20 genomic copies of the low fractional concentration DNA and 980 copies of the high fractional concentration DNA in each PCR. In these mixture studies, not all DNA pairs will yield informative data for every SNP. Informative data can only be obtained for a SNP when the maternal genotype is homozygous for the non-informative allele and the child's genotype is heterozygous for the SNP. With no Tsp509I treatment, potentially informative DNA mixtures show median informative peak area ratios at background levels. After Tsp509I treatment, the majority of DNA mixtures with potentially informative genotype combinations for the indicated SNP show median peak area ratios above 0.5 with many peak area ratios at 1.0. Peak area ratios of 1.0 indicate that there is no detectable non-informative allele peak area present. This indicates the utility of the multiplexed SNPs to detect a low fractional concentration DNA present at least as low as 2% of the total DNA present and at levels as low as 20 genomic copies of DNA.

Detection of Low Fractional Concentration DNA

Modified versions of multiplexes 2, 5, and 6 with a total of 95 SNP assays (see Table 16) were tested for their ability to detect a low fractional concentration DNA. Sample test groups included:

-   -   1) Maternal only genomic DNA used in DNA mixture models     -   2) 2% DNA mixtures of child/maternal genomic DNA     -   3) Maternal PBMC DNA (pairing to the plasma DNA below)     -   4) Maternal plasma DNA previously shown positive for 8         Y-chromosomal markers indicating the presence of male fetal DNA         (pairing to PBMC DNA above)

For the comparison, each of the above sample types was digested with Tsp509I prior to genotyping with the TypePLEX extend assay. Separately, maternal genotypes from undigested maternal DNA was determined to identify potentially informative SNPs for each sample. For this analysis, no genotype information obtained directly from child genomic DNA or fetal genomic DNA was used.

With 95 SNP genotype assays, one would expect to have 3 or more informative genotype combinations in ˜99.9% of cases with biologically related maternal and child genotypes.

Therefore, detection of at least 3 informative SNP alleles present in a Tsp509I digested sample that are not present in an undigested maternal only DNA sample should allow detection of a low fractional concentration DNA. Increasing this required number of detected informative SNP alleles to greater than 3 will likely increase the specificity but at the expense of sensitivity.

In prior studies with the DNA mixtures, it was noted that in the Tsp509I digested samples, background levels of informative allele peak area could lead to artificially high detection of an informative allele peak area ratio. Therefore, preliminary threshold criteria were established to improve the accuracy of detecting informative SNP alleles arising from low fractional concentration DNA. In the data here, these thresholds are defined as follows:

-   -   1) Informative allele peak area ratios must be at least 0.4         greater in the digested DNA mixture or digested maternal plasma         DNA sample versus the matching undigested maternal sample.         -   —and—     -   2) There must be greater than 15% primer extension product         generated for the SNP.

The criteria used here to determine the presence or absence of an informative SNP allele are preliminary and are only exemplary. Additionally, individual SNP assays within the multiplexes may have their own criteria. Alteration of these criteria can have significant impact on the detection of informative SNP alleles in either a positive or negative manner.

As can be seen in FIG. 10, there is a clear delineation between mixed DNAs and maternal only DNA in the DNA mixture model, where at most 3 informative SNP alleles (as defined by the criteria above) are detected in maternal only DNA and 6-18 informative SNP alleles are detected in each of the DNA mixtures containing 20/980 genomic copies of child/maternal DNA. In the plasma sample testing, this delineation, while not as clear as in the DNA mixture model, is still present between maternal PBMC DNA and maternal plasma DNA. Here, maternal PBMC DNA shows at most 3 informative SNP alleles detected while the maternal plasma DNAs show 4-19 informative SNP alleles detected. The dashed lines represents a possible cut-off value for informative and non-informative alleles. These data provide an evaluation of the utility of the method to detect low fractional concentration DNA.

Detection of Fetal Identifier Alleles in Maternal Plasma

The ability to detect fetal identifier alleles in maternal plasma DNA and non-pregnant female plasma DNA was compared. Ninety-two of the fetal identifier SNPs in Table 16 in 3 multiplexes were assayed by genotyping buffy coat, PBMC or whole blood genomic DNA from plasma samples. The samples were analyzed in parallel with and without Tsp509I digestion, and they were subsequently genotyped for the same SNPs. Genotype measurement was performed on the MassARRAY® system. A fetal identifier allele was counted as ‘detected’ if the undigested genomic DNA was homozygous for the cleavable SNP allele and the matching plasma DNA sample showed the presence of the non-cleavable SNP allele after digestion of the plasma DNA with Tsp509I.

FIG. 11 shows the results from the 117 plasma samples tested for the 92 SNPs. The x-axis of the dot plot above indicates the number of fetal identifier alleles detected in a plasma DNA sample. Each dot in the dot plot field represents a sample. The top portion of the panel comprises 27 non-pregnant plasma samples. The bottom portion of the panel comprises 90 pregnant, maternal plasma samples. The legend provides sample type and fetal sex (if known).

As expected, the fetal identifier alleles were detected in the pregnant maternal samples and not the non-pregnant plasma samples. As the number of SNPs tested increases, the probability of the number of informative SNPs also increases. This is shown graphically in FIG. 12. The FIG. 12 graph shows the probability of the number of informative SNPs for each of the selected thresholds (1-6, shown each with a different color) at increasing numbers of total SNPs assayed. For example, if 90 SNPs are assayed, the probability of at least 4 SNPs being informative is almost 100%.

TABLE 16 MP2.1 MP5.1 MP6.1 rs11835780 rs748773 rs7323716 rs4311632 rs6488494 rs9652080 rs13110085 rs1363267 rs10785736 rs13269702 rs10840805 rs7356482 rs1797700 rs2723307 rs7831906 rs2993531 rs4764597 rs9818611 rs1885121 rs4589569 rs12903747 rs1372688 rs2820107 rs7320201 rs1904161 rs6766358 rs4869315 rs1720839 rs12675087 rs3913810 rs10901705 rs7689368 rs6542638 rs6582294 rs725849 rs12450474 rs7144509 rs7900002 rs1346718 rs10234234 rs910500 rs1503660 rs8016543 rs4489023 rs2007475 rs11221881 rs1916803 rs683262 rs13155942 rs10260483 rs10110766 rs494220 rs4488809 rs1041409 rs3912319 rs4533845 rs11099210 rs9428474 rs3816551 rs10754776 rs9929404 rs6556642 rs4130306 rs7294836 rs7205009 rs2734574 rs4673821 rs12674093 rs1401454 rs614004 rs2322301 rs9285190 rs1444647 rs7741525 rs179596 rs7818415 rs17074340 rs331893 rs12007 rs2462049 rs9787011 rs9356029 rs10806232 rs6569474 rs11105611 rs9989393 rs10898954 rs12107918 rs6043856 rs664358 rs263025 rs1593443 rs6142841 rs1342995 rs273172

The entirety of each patent, patent application, publication and document referenced herein hereby is incorporated by reference. Citation of the above patents, patent applications, publications and documents is not an admission that any of the foregoing is pertinent prior art, nor does it constitute any admission as to the contents or date of these publications or documents.

Modifications may be made to the foregoing without departing from the basic aspects of the invention. Although the invention has been described in substantial detail with reference to one or more specific embodiments, those of ordinary skill in the art will recognize that changes may be made to the embodiments specifically disclosed in this application, yet these modifications and improvements are within the scope and spirit of the invention.

The invention illustratively described herein suitably may be practiced in the absence of any element(s) not specifically disclosed herein. Thus, for example, in each instance herein any of the terms “comprising,” “consisting essentially of,” and “consisting of” may be replaced with either of the other two terms. The terms and expressions which have been employed are used as terms of description and not of limitation, and use of such terms and expressions do not exclude any equivalents of the features shown and described or portions thereof, and various modifications are possible within the scope of the invention claimed. The term “a” or “an” can refer to one of or a plurality of the elements it modifies (e.g., “a reagent” can mean one or more reagents) unless it is contextually clear either one of the elements or more than one of the elements is described. The term “about” as used herein refers to a value within 10% of the underlying parameter (i.e., plus or minus 10%), and use of the term “about” at the beginning of a string of values modifies each of the values (i.e., “about 1, 2 and 3” is about 1, about 2 and about 3). For example, a weight of “about 100 grams” can include weights between 90 grams and 110 grams. Further, when a listing of values is described herein (e.g., about 50%, 60%, 70%, 80%, 85% or 86%) the listing includes all intermediate values thereof (e.g., 54%, 85.4%). Thus, it should be understood that although the present invention has been specifically disclosed by representative embodiments and optional features, modification and variation of the concepts herein disclosed may be resorted to by those skilled in the art, and such modifications and variations are considered within the scope of this invention.

Certain embodiments of the invention are set forth in the claims that follow. 

1. A method for detecting in nucleic acid the presence or absence of one or more target alleles of paternal origin, comprising: a) cleaving nucleic acid from a sample with a Tsp509I restriction enzyme; b) exposing the nucleic acid after (a) to amplification conditions that amplify uncleaved nucleic acid but not cleaved nucleic acid, and which amplification conditions are capable of generating amplification products comprising some or all of the single nucleotide polymorphic loci selected from the group consisting of: rs11835780 rs748773 rs7323716 rs4311632 rs6488494 rs9652080 rs13110085 rs1363267 rs10785736 rs13269702 rs10840805 rs7356482 rs1797700 rs2723307 rs7831906 rs2993531 rs4764597 rs9818611 rs1885121 rs4589569 rs12903747 rs1372688 rs2820107 rs7320201 rs1904161 rs6766358 rs4869315 rs1720839 rs12675087 rs3913810 rs10901705 rs7689368 rs6542638 rs6582294 rs725849 rs12450474 rs7144509 rs7900002 rs1346718 rs10234234 rs910500 rs1503660 rs8016543 rs4489023 rs2007475 rs11221881 rs1916803 rs683262 rs13155942 rs10260483 rs10110766 rs494220 rs4488809 rs1041409 rs3912319 rs4533845 rs11099210 rs9428474 rs3816551 rs10754776 rs9929404 rs6556642 rs4130306 rs7294836 rs7205009 rs2734574 rs4673821 rs12674093 rs1401454 rs614004 rs2322301 rs9285190 rs1444647 rs7741525 rs179596 rs7818415 rs17074340 rs331893 rs12007 rs2462049 rs9787011 rs9356029 rs10806232 rs273172 rs6569474 rs11105611 rs9989393 rs10898954 rs12107918 rs1342995 rs6043856 rs664358 rs263025 rs1593443 and rs6142841, thereby

generating amplification products; and c) detecting the presence or absence of one or more target alleles based on the amplification products.
 2. The method of claim 1, wherein part (b) is conducted using amplification primer pairs selected the group consisting of: 5′-ACGTTGGATGGGCTCTAGTTTTCAGCAGAC-3′ and 5′-ACGTTGGATGCTCAAAACCTGGCTACCTTG-3′; 5′-ACGTTGGATGCTTCTTTTCCCTGCATCATC-3′ and 5′-ACGTTGGATGAGGGAAGTGTTGTAGCATGG-3′; 5′-ACGTTGGATGAAGCAGGTACTTACTATGGG-3′ and 5′-ACGTTGGATGGTACTGTTAGTGTGTCACTC-3′; 5′-ACGTTGGATGTTGCCTAGCCTTACATCCTG-3′ and 5′-ACGTTGGATGCTCAAAATAGATGATGGACTG-3′; 5′-ACGTTGGATGCAATCAGCTACTGCTGATCC-3′ and 5′-ACGTTGGATGTGGTTTGGTTTCTCAGCTGG-3′; 5′-ACGTTGGATGGAGAGAGGGAGAAAGTAGAG-3′ and 5′-ACGTTGGATGCCCTTACTCAGTGATTCCTC-3′; 5′-ACGTTGGATGCCTACCTTGCTCTGAGAAAC-3′ and 5′-ACGTTGGATGCTTCCTGCTTTTAAGCAGTC-3′; 5′-ACGTTGGATGAGTGCAACAGAAAAGGCAGG-3′ and 5′-ACGTTGGATGGGTCCTTGGTATGTGTTCTC-3′; 5′-ACGTTGGATGTCTGAAGGTAGACCTGGATG-3′ and 5′-ACGTTGGATGCTCAGGATATCATTACACACC-3′; 5′-ACGTTGGATGGTTACACTGACAATCAAGGG-3′ and 5′-ACGTTGGATGACTCTCATGTACCCTCTCTG-3′; 5′-ACGTTGGATGAGAAGATATGTTGAGAGGGC-3′ and 5′-ACGTTGGATGTATTCCCTTTCTGGCTGTGG-3′; 5′-ACGTTGGATGCTGCCTATTCTTCTACGGTC-3′ and 5′-ACGTTGGATGCAGAAACATGCTTGTAGCAG-3′; 5′-ACGTTGGATGAATGAGAGCTTGCTTACTTC-3′ and 5′-ACGTTGGATGAGTGTCGTTCAGACACTAGC-3′; 5′-ACGTTGGATGTTTAATAGGGAAAGTATTGG-3′ and 5′-ACGTTGGATGCACACCCAGAAGCACTGATA-3′; 5′-ACGTTGGATGCCTTCTGCTCAACTACCAAG-3′ and 5′-ACGTTGGATGGCCAAAGACGATGTGGAATG-3′; 5′-ACGTTGGATGTTTCACAGGGTTAGGATGGG-3′ and 5′-ACGTTGGATGCTAGCAAAGGCTGGATTCTG-3′; 5′-ACGTTGGATGAGCCACCAAAACCAAGCTTC-3′ and 5′-ACGTTGGATGCTTGTAAGGCAGGTCTGATG-3′; 5′-ACGTTGGATGGCTTGCAGAGGTTCACTAAC-3′ and 5′-ACGTTGGATGTGAGGCCATTAAAAGCAGGG-3′; 5′-ACGTTGGATGAGCAAGTGTTCCCTTTTTGG-3′ and 5′-ACGTTGGATGCACGCGTAGGCTATGGTTTA-3′; 5′-ACGTTGGATGCGGTTTCTTTTGAGGACTGG-3′ and 5′-ACGTTGGATGGCTCAGTGTCTGACAAAAGC-3′; 5′-ACGTTGGATGAAGAATGGAAAGTGATGAG-3′ and 5′-ACGTTGGATGCTAGGCTTGTTCACTATTTG-3′; 5′-ACGTTGGATGCATTGCTTGGGTCTTCTCAG-3′ and 5′-ACGTTGGATGGGGTTCTGGCAGATATATCC-3′; 5′-ACGTTGGATGTATGGATGCAAGCCTTTCCC-3′ and 5′-ACGTTGGATGAGGCTGAAGAATGCTTTCCC-3′; 5′-ACGTTGGATGTGTGCAGCACTTTTCACAAG-3′ and 5′-ACGTTGGATGCAGGGTCACATCACAGATTG-3′; 5′-ACGTTGGATGGCTTGTTAAATGTGTGTTCC-3′ and 5′-ACGTTGGATGTCCCTCAGTTTAGTTTTGTC-3′; 5′-ACGTTGGATGGATAATATTGTGCTGCATGCT-3′ and 5′-ACGTTGGATGACCTTGTTCTGTGTGTGTGG-3′; 5′-ACGTTGGATGCTCCCATCTATGATTTCCAG-3′ and 5′-ACGTTGGATGATGCATATCTGGAGACACAC-3′; 5′-ACGTTGGATGCCAGTCAAGGAAGCAGTTTC-3′ and 5′-ACGTTGGATGGTCTGATTAGGCCTAAGAGC-3′; 5′-ACGTTGGATGTACCATGCTCATTGAACTCG-3′ and 5′-ACGTTGGATGGGAGATTTGATAGGAAGTGC-3′; 5′-ACGTTGGATGAAATGCTACTCCAACAGAGG-3′ and 5′-ACGTTGGATGCTTCATTATCCCCACTGCTG-3′; 5′-ACGTTGGATGGATGATGAAAGCATAAGTC-3′ and 5′-ACGTTGGATGGAGATGTTGCAAAGATGCAAG-3′; 5′-ACGTTGGATGCTGGATCTTACCTCCATAGC-3′ and 5′-ACGTTGGATGACTAGAATCGTGCAGAGAAC-3′; 5′-ACGTTGGATGAAGTGCTGGGATTACAGGAG-3′ and 5′-ACGTTGGATGGAGACAGGCAAAGATGCAAC-3′; 5′-ACGTTGGATGGAGACGATTCTTCAGGAAAC-3′ and 5′-ACGTTGGATGCCATGACTCTAGTGACCTTC-3′; 5′-ACGTTGGATGTAAGCATCCATGGACCTACC-3′ and 5′-ACGTTGGATGCAGGTGGTAAATGTGCTCAG-3′; 5′-ACGTTGGATGTTGACTCACCCACTTCTGTC-3′ and 5′-ACGTTGGATGTGTTGATGAGGTGAAGAGGG-3′; 5′-ACGTTGGATGAGCTTGGGCTGAATGTTAGG-3′ and 5′-ACGTTGGATGTAAAAGCAAAACAGCTTCCC-3′; 5′-ACGTTGGATGTTTTTCCTCCTGTACCCTGC-3′ and 5′-ACGTTGGATGTACATGTGGTTAGAGTCTGG-3′; 5′-ACGTTGGATGGGGAAGGTGTTTGTCTCATA-3′ and 5′-ACGTTGGATGTGGTACAGTTTGAAAGGAGC-3′; 5′-ACGTTGGATGGCATTATGCTAAAGGCTGTC-3′ and 5′-ACGTTGGATGTCCTCTGATTTAGGCCCTTC-3′; 5′-ACGTTGGATGGGATCAAGAGGAAAAAATGGG-3′ and 5′-ACGTTGGATGTAGTTTCAATCTCTGTGCTG-3′; 5′-ACGTTGGATGCTATGTTTTCCCCCAGCTTG-3′ and 5′-ACGTTGGATGGCAAAAGAACAACCACCCAG-3′; 5′-ACGTTGGATGGACCTTCCTGTTCCTAGATG-3′ and 5′-ACGTTGGATGTGACTGGACTGTGACATAGC-3′; 5′-ACGTTGGATGAGATTGGTCCCTCACAATGG-3′ and 5′-ACGTTGGATGATTTGGCCCTGAGGCTTATC-3′; 5′-ACGTTGGATGCACTGAGAGATACAGGAAAG-3′ and 5′-ACGTTGGATGCTTGTTTCCCCAACATAAGG-3′; 5′-ACGTTGGATGATCCATCTCTGTCAGAGTTC-3′ and 5′-ACGTTGGATGAGAGAACTGACCCTTCACTG-3′; 5′-ACGTTGGATGGGTGGAGATGGGATTCTCTG-3′ and 5′-ACGTTGGATGAACCCAGTCTACACACACAG-3′; 5′-ACGTTGGATGACTGGCCATGCAGATGTAAG-3′ and 5′-ACGTTGGATGCACTGCCCATAGACTCTTTC-3′; 5′-ACGTTGGATGTTACGACCCAATCACCTTGC-3′ and 5′-ACGTTGGATGTGTGTCCCCAACCACATTTC-3′; 5′-ACGTTGGATGAACTGATGGCTCGTACTACC-3′ and 5′-ACGTTGGATGGCTCTTTTCCCTATGATGTG-3′; 5′-ACGTTGGATGGGTTTATTGGAAATGAAGTC-3′ and 5′-ACGTTGGATGGATCCTACTTACTTCCAGTC-3′; 5′-ACGTTGGATGGCAAGCATCTGCTCTTGAGG-3′ and 5′-ACGTTGGATGCTGTGTAAAAGAGTTTGAGG-3′; 5′-ACGTTGGATGGGGCTCTTATTATTGTACTC-3′ and 5′-ACGTTGGATGAACAAGCCCAAGTTCTCCAG-3′; 5′-ACGTTGGATGGGCAGAACAAGGACAGATAG-3′ and 5′-ACGTTGGATGAGTCTAGTAAAAGTTCTGCC-3′; 5′-ACGTTGGATGTACATTCAGACGATAGTGCC-3′ and 5′-ACGTTGGATGAGACCAAGTAACCCCAAACC-3′; 5′-ACGTTGGATGGTCACTGAACTCTGGAGTAG-3′ and 5′-ACGTTGGATGGCAGTTTTCAAAGGAAACCC-3′; 5′-ACGTTGGATGAGATCCTCCAGCTCATCTTC-3′ and 5′-ACGTTGGATGTAATCCTTGGAGGCTCTCTG-3′; 5′-ACGTTGGATGTAGAGCTCACAGAGCACTTC-3′ and 5′-ACGTTGGATGAGCACTTAACTGAGTCTGGG-3′; 5′-ACGTTGGATGCTTTGCTCACAAGAAAGTTGG-3 and 5′-ACGTTGGATGCCCCCAAGGCAATGATTTTC-3′; 5′-ACGTTGGATGTAATACCCTGAGCAAGGACG-3′ and 5′-ACGTTGGATGGTGCATTTAAAATCCATGTG-3′; 5′-ACGTTGGATGTGTTACAGCAGCTAGTGTTG-3′ and 5′-ACGTTGGATGCCTCTAATAGCACCCAGTTC-3′; 5′-ACGTTGGATGGTCCATTTAACGGTGTGGAG-3′ and 5′-ACGTTGGATGGGTTCATGAAATGTTAGTTCC-3′; 5′-ACGTTGGATGTATCCATCCTTCAGACACCC-3′ and 5′-ACGTTGGATGATGGGACAGTAACTGCAGAC-3′; 5′-ACGTTGGATGCTCAGTTTAAAGTCACTGCC-3′ and 5′-ACGTTGGATGTAACCCTGCAAAGACTAGAG-3′; 5′-ACGTTGGATGGCCAGCTTGTCCATTAAAGG-3′ and 5′-ACGTTGGATGCTGGCTTATAAATAAAAGACC-3′; 5′-ACGTTGGATGCATTGCAGTAACTGGAGGTC-3′ and 5′-ACGTTGGATGGGCACAGTAGTTCAGTTACC-3′; 5′-ACGTTGGATGAGTGAGACTTAACCGTGGAG-3′ and 5′-ACGTTGGATGCACCCCCACATTAGCAAAAG-3′; 5′-ACGTTGGATGATCTTCATGTCCCAAGGAGG-3′ and 5′-ACGTTGGATGCCAAGTTTATGAAACGTAG-3′; 5′-ACGTTGGATGCACATGCTAGAGAAAGAGGG-3′ and 5′-ACGTTGGATGTATGTCCTTCCCTGATTTTC-3′; 5′-ACGTTGGATGAGGATGCCTGTTGGGTTTTC-3′ and 5′-ACGTTGGATGATCAGACTTTTCCCAGGCAG-3′; 5′-ACGTTGGATGAAGCAACTGGCACTCCTAAG-3′ and 5′-ACGTTGGATGGAGTGTTGTGATGCATGCC-3′; 5′-ACGTTGGATGGTATCTCCCACTCTTGTACC-3′ and 5′-ACGTTGGATGCTGGAATACAACATTTCTGG-3′; 5′-ACGTTGGATGTTGTGTGCTATCTTACACTG-3′ and 5′-ACGTTGGATGACTAGTTGGAATGGGCTTGG-3′; 5′-ACGTTGGATGACTCCCTACCTATCTCTTTG-3′ and 5′-ACGTTGGATGTCCACAGCCACTGAATAGTC-3′; 5′-ACGTTGGATGTCATGTAACCAAGCACCACC-3′ and 5′-ACGTTGGATGGCTCATTTATAGAAGCAGTC-3′; 5′-ACGTTGGATGCAGTGGATTTCAAATCCGGC-3′ and 5′-ACGTTGGATGTGTTCAGAGGGTGTTGGATG-3′; 5′-ACGTTGGATGCATCAGCAATATAATGCCGC-3′ and 5′-ACGTTGGATGTGTGGATCACTGTTCACAGG-3′; 5′-ACGTTGGATGCACCAGTGCAAACACACAAC-3′ and 5′-ACGTTGGATGCCTGATTGTTTTGGAAGGAG-3′; 5′-ACGTTGGATGAGTTGCCATGTTTCCACAGG-3′ and 5′-ACGTTGGATGGACTAATACTCAGGTTGAGG-3′; 5′-ACGTTGGATGTGGAAGGCAGAGTGATATAC-3′ and 5′-ACGTTGGATGGCTTTCTTCACTCAGAAGGG-3′; 5′-ACGTTGGATGGAGGAGTTATAAGACCTAGAG-3′ and 5′-ACGTTGGATGACCATATCACAGTTGTTGGG-3′; 5′-ACGTTGGATGCTACGTGACCCAAAGTTCAG-3′ and 5′-ACGTTGGATGTCTCACTCCTGGTTACCTAC-3′; 5′-ACGTTGGATGTTATACAGGTTCCAGCCAGC-3′ and 5′-ACGTTGGATGCAGAGAGAAAAGGGAGTAGG-3′; 5′-ACGTTGGATGACTGATACCCTACAGTGTGC-3′ and 5′-ACGTTGGATGGTGCTCAGAGCACTTAAACG-3′; 5′-ACGTTGGATGAATCTTGGAGCCTTGGAGAC-3′ and 5′-ACGTTGGATGGTGCTTCTCACAAAAGCCTG-3′; 5′-ACGTTGGATGATCCTGGGCTTTCCTTTGTC-3′ and 5′-ACGTTGGATGGAGTCTAGTGGACAAGAGAG-3′; 5′-ACGTTGGATGTGGAGGCCACTGGATTAAAG-3′ and 5′-ACGTTGGATGAGACACAGCTAGCACTTTCC-3′; 5′-ACGTTGGATGGTTTGGTGACTATAGAAACAG-3′ and 5′-ACGTTGGATGCAGTTTAAAGTCATATTCAC-3′; 5′-ACGTTGGATGGAGCACTTATCACAGGTCAG-3′ and 5′-ACGTTGGATGGAAGGTGGGATAAACAAGGG-3′; 5′-ACGTTGGATGGTTCTGGATGTTGGCCATTC-3′ and 5′-ACGTTGGATGCCACATCATATGCATCTGGG-3′; 5′-ACGTTGGATGGAGATGAGTAAGAGCAGGTG-3′ and 5′-ACGTTGGATGCTCATAAGACCCTGAACACC-3′; 5′-ACGTTGGATGACTGAAGCATAACGCCTCTG-3′ and 5′-ACGTTGGATGGGTGCCCAAACATGTTATGC-3′; 5′-ACGTTGGATGAGAAGGAGGTCATTCTAGGC-3′ and 5′-ACGTTGGATGACATGGACTCTAAAGCCACC-3′; 5′-ACGTTGGATGTGAATCCCATGAGCATGAGC-3′ and 5′-ACGTTGGATGATTCCACACAGCATTGCCTC-3′; and 5′-ACGTTGGATGCTGTCAAAAGCCAGGCTAAG-3′ and 5′-ACGTTGGATGGAGGTTCAAAGAGTATAAAG-3′.


3. The method of claim 1, further comprising contacting the amplification products with one or more extension primers.
 4. The method of claim 3, wherein the extension primers are selected from the group consisting of: 5′-gCCTGGGAGAAAGAAAACAA-3′, 5′-catccGTTTTTCCCTCTTGACTGAAT-3′, 5′-cgggACTTACTATGGGGAATAGAAT-3′, 5′-caccTCCTGAATACTTTCTCATATAGA-3′, 5′-TGATCCACTGGCTCAA-3′, 5′-ggagGGTGGTTAGAGAACTCAATGAAT-3′, 5′-AGCCTGCACTGTGAA-3′, 5′-CAAGTCTTCTATCAAGGGAAT-3′, 5′-aCTGAGAGCAACCACTAA-3′, 5′-cGAGGAGGGCAGAGAAGAAT-3′, 5′-cccctAGAGGGCAGATAAATAGTTAAAT-3′, 5′-gtcgTCTACGGTCTTTTTCTTATCAA-3′, 5′-ctAGCTTGCTTACTTCTAAAAA-3′, 5′-aaatcTAAATAGCCAAGAAAACAGCCAA-3′, 5′-attaTGCTCAACTACCAAGTTAAGA-3′, 5′-acatGGAGTTTCCTGTACTTTAAAAAA-3′, 5′-tgAGCAAGTGCTGAGGG-3′, 5′-gATACAGCTTGGCCAAT-3′, 5′-GGGGCTGGTAGGAAAT-3′, 5′-ctcTCTTTCTCCAGGGATGA-3′, 5′-cGTGATGAGATTTCTATCATACAA-3′, 5′-cccccCCTTCCATGGGACTCATTA-3′, 5′-GACTATCCTCTTCAGACCAA-3′, 5′-cccCAAGTTGAAAACTTATTCCAA-3′, 5′-tttcAAATGTGTGTTCCATCATCTA-3′, 5′-gggtTGCTGCATGCTGTAAAT-3′, 5′-ccacATCATGCCTCTATTGACA-3′, 5′-cCAGTTTCAATAACAGATAGTAAAT-3′, 5′-aaAAAACTCAATATAGTAAAGGTATCAA-3′, 5′-GGAGGTGACATAAGTAAGTA-3′, 5′-ATGATGAAAGCATAAGTCTTTTAAT-3′, 5′-agCTTACCTCCATAGCATCTAA-3′, 5′-TGGCCAGAACTAATCAA-3′, 5′-AAGACAAAGGACACCAA-3′, 5′-caGACCTACCACCCAAAT-3′, 5′-ACTTCTGTCTCAGTATCCA-3′, 5′-ctAGCGTTTCACGTTCAAAA-3′, 5′-aaaTGCAATCTGTCTGGAAA-3′, 5′-ggtcCTTTCTGCAGCTCATATTCTGCAA-3′, 5′-GGCTGTCACAGATTTATAAAA-3′, 5′-cATGGGAAACATGCCTCAATAAAT-3′, 5′-acttTGCTAGGTCTTACATGAA-3′, 5′-acgTTCCTGTTCCTAGATGATCAAAAT-3′, 5′-AGTCTTTCTGAGCCCAA-3′, 5′-agcGAGATACAGGAAAGTGTAAAT-3′, 5′-aggTCTCAAATAAAAATGCAAAGGAAA-3′, 5′-GGGATTCTCTGGTTGTAAA-3′, 5′-gCCAACAGAGAAAGTAACAA-3′, 5′-tCCTCCTCAAACATTAAGGACAAAA-3′, 5′-tGTACTACCCAGTGGAATAAA-3′, 5′-tcTTTAAAGTGCTACATCTATGAA-3′, 5′-cgGCTCTTGAGGCAGTAAA-3′, 5′-cGGCTCTTATTATTGTACTCTATAAA-3′, 5′-atcGGTGGATGTTTCAGGGAAGTAAA-3′, 5′-ggtaAGACGATAGTGCCAGAAAAT-3′, 5′-agCAGATAGCCTCTTGTGAAT-3′, 5′-GCTCATCTTCCTCTGAA-3′, 5′-GCACTTCCCTACAAACAA-3′, 5′-TTGGAACTATCGTTCAAAAAGTATTA-3′, 5′-cccatGACGTCACCCTGTAAAAA-3′, 5′-tcGCTAGTGTTGCACTAATAAAAAAAT-3′, 5′-cccccGTGTGGAGAAGTGCGAGT-3′, 5′-AGACACCCAGGCCAA-3′, 5′-cCACTGCCAGTGACCTAA-3′, 5′-cACTTGAAAAATACTTTAGACTTTCTT-3′, 5′-gATCATTGTATAGGTTCCCAGA-3′, 5′-aaatTGAACTGTAGCAAGAAACAAA-3′, 5′-ggatGGAAAAGCTGAAAAGGAA-3′, 5′-ccctcAATCATTCTATGAAGCCAAT-3′, 5′-gTACTGAGATTGACAAGTCATTAAA-3′, 5′-TGGCACTCCTAAGACCAAA-3′, 5′-cCTCTTGTACCCCAGAAAAA-3′, 5′-cGTAGCTTCCTAGCCAAA-3′, 5′-gtcgCTTTGAAAAGCCTTAACCATTAA-3′, 5′-cccccCCCCAAAAACCTACTGAAAT-3′, 5′-GCCGCACATCAGAAT-3′, 5′-CAATCCTTTATCTCTCTCTAATAC-3′, 5′-gaagtAATGGAGAACCTGGTTAA-3′, 5′-ccCAGGATCCTCTAGATTGTGAAAA-3′, 5′-agagACTGAGACAGGCAGTAGCCTAAT-3′, 5′-tgaagGAGAGCTTAACTAAAATAAACAA-3′, 5′-ggggcCCCAAAGTTCAGGATGGTAA-3′, 5′-ACCTGATACTGAAGCCAAA-3′, 5′-TGGATATGACTTGCCCAA-3′, 5′-gTAGTTTCTTTAGCTCTTGAATAAAAT-3′, 5′-acTTGTCACACCTCTTCAAAT-3′, 5′-ggTTAAAGGAGACAATGTATGTAAAT-3′, 5′-gaagGTGTTGCCAAAAGCTAAT-3′, 5′-gtaatTGCCCCTTCAAGTGAAT-3′, 5′-GTGCTATCTCATTGTTGTTTGAAA-3′, 5′-GAGCAGGTGAAATGTTTCTA-3′, 5′-gaCTCTGGGACTACTAAGAAGA-3′, 5′-gggcGGTCATTCTAGGCCATTAATAA-3′, 5′-GAGCCCACTGCTACA-3′, and 5′-CCAGGCTAAGGCAAAT-3′.


5. The method of claim 1, wherein the sample is from a pregnant female or a female suspected of being pregnant.
 6. The method of claim 5, wherein the sample is blood.
 7. The method of claim 1, wherein 20 or more of the single nucleotide polymorphic loci are assayed.
 8. The method of claim 1, wherein 60 or more of the single nucleotide polymorphic loci are assayed.
 9. The method of claim 1, wherein 90 or more of the single nucleotide polymorphic loci are assayed.
 10. The method of claim 1, wherein the target allele concentration is 10% or less of total nucleic acid concentration prior to cleaving and amplifying the nucleic acid.
 11. The method of claim 1, wherein four or more of the single nucleotide polymorphic loci are informative of the presence or absence of the one or more target alleles.
 12. The method of claim 1, further comprising determining whether fetal nucleic acid is present in the sample.
 13. A method for detecting in nucleic acid the presence or absence of one or more target alleles of paternal origin, comprising: a) cleaving nucleic acid from a sample with a Tsp509I restriction enzyme; b) exposing the nucleic acid after (a) to amplification conditions that amplify uncleaved nucleic acid but not cleaved nucleic acid, and which amplification conditions are capable of generating amplification products comprising the following single nucleotide polymorphic loci: rs748773 rs7323716 rs4311632 rs6488494 rs9652080 rs7356482 rs13110085 rs1363267 rs10785736 rs13269702 rs10840805 rs7320201 rs1797700 rs2723307 rs2993531 rs4764597 rs9818611 rs3913810 rs1885121 rs4589569 rs12903747 rs1372688 rs2820107 rs12450474 rs1904161 rs6766358 rs4869315 rs1720839 rs12675087 rs1503660 rs10901705 rs7689368 rs6542638 rs6582294 rs725849 rs683262 rs7144509 rs7900002 rs1346718 rs10234234 rs910500 rs10754776 rs8016543 rs4489023 rs2007475 rs11221881 rs1916803 rs2734574 rs13155942 rs10110766 rs494220 rs4488809 rs1041409 rs9285190 rs3912319 rs4533845 rs11099210 rs9428474 rs3816551 rs331893 rs9929404 rs6556642 rs4130306 rs7294836 rs7205009 rs273172 rs4673821 rs12674093 rs1401454 rs614004 rs2322301 rs1342995 rs1444647 rs7741525 rs179596 rs7818415 rs17074340 rs6142841 rs12007 rs2462049 rs9787011 rs9356029 rs10806232 rs1593443 rs6569474 rs11105611 rs9989393 rs10898954 rs263025 rs664358 rs6043856 and rs12107918,

thereby generating amplification products; and c) detecting the presence or absence of one or more target alleles based on the amplification products.
 14. The method of claim 13, wherein part (b) is conducted using amplification primer pairs: 5′-ACGTTGGATGGGCTCTAGTTTTCAGCAGAC-3′ and 5′-ACGTTGGATGCTCAAAACCTGGCTACCTTG-3′; 5′-ACGTTGGATGCTTCTTTTCCCTGCATCATC-3′ and 5′-ACGTTGGATGAGGGAAGTGTTGTAGCATGG-3′; 5′-ACGTTGGATGAAGCAGGTACTTACTATGGG-3′ and 5′-ACGTTGGATGGTACTGTTAGTGTGTCACTC-3′; 5′-ACGTTGGATGTTGCCTAGCCTTACATCCTG-3′ and 5′-ACGTTGGATGCTCAAAATAGATGATGGACTG-3′; 5′-ACGTTGGATGCAATCAGCTACTGCTGATCC-3′ and 5′-ACGTTGGATGTGGTTTGGTTTCTCAGCTGG-3′; 5′-ACGTTGGATGGAGAGAGGGAGAAAGTAGAG-3′ and 5′-ACGTTGGATGCCCTTACTCAGTGATTCCTC-3′; 5′-ACGTTGGATGCCTACCTTGCTCTGAGAAAC-3′ and 5′-ACGTTGGATGCTTCCTGCTTTTAAGCAGTC-3′; 5′-ACGTTGGATGAGTGCAACAGAAAAGGCAGG-3′ and 5′-ACGTTGGATGGGTCCTTGGTATGTGTTCTC-3′; 5′-ACGTTGGATGTCTGAAGGTAGACCTGGATG-3′ and 5′-ACGTTGGATGCTCAGGATATCATTACACACC-3′; 5′-ACGTTGGATGGTTACACTGACAATCAAGGG-3′ and 5′-ACGTTGGATGACTCTCATGTACCCTCTCTG-3′; 5′-ACGTTGGATGAGAAGATATGTTGAGAGGGC-3′ and 5′-ACGTTGGATGTATTCCCTTTCTGGCTGTGG-3′; 5′-ACGTTGGATGCTGCCTATTCTTCTACGGTC-3′ and 5′-ACGTTGGATGCAGAAACATGCTTGTAGCAG-3′; 5′-ACGTTGGATGAATGAGAGCTTGCTTACTTC-3′ and 5′-ACGTTGGATGAGTGTCGTTCAGACACTAGC-3′; 5′-ACGTTGGATGTTTAATAGGGAAAGTATTGG-3′ and 5′-ACGTTGGATGCACACCCAGAAGCACTGATA-3′; 5′-ACGTTGGATGCCTTCTGCTCAACTACCAAG-3′ and 5′-ACGTTGGATGGCCAAAGACGATGTGGAATG-3′; 5′-ACGTTGGATGTTTCACAGGGTTAGGATGGG-3′ and 5′-ACGTTGGATGCTAGCAAAGGCTGGATTCTG-3′; 5′-ACGTTGGATGAGCCACCAAAACCAAGCTTC-3′ and 5′-ACGTTGGATGCTTGTAAGGCAGGTCTGATG-3′; 5′-ACGTTGGATGGCTTGCAGAGGTTCACTAAC-3′ and 5′-ACGTTGGATGTGAGGCCATTAAAAGCAGGG-3′; 5′-ACGTTGGATGAGCAAGTGTTCCCTTTTTGG-3′ and 5′-ACGTTGGATGCACGCGTAGGCTATGGTTTA-3′; 5′-ACGTTGGATGCGGTTTCTTTTGAGGACTGG-3′ and 5′-ACGTTGGATGGCTCAGTGTCTGACAAAAGC-3′; 5′-ACGTTGGATGAAGAATGGAAAGTGATGAG-3′ and 5′-ACGTTGGATGCTAGGCTTGTTCACTATTTG-3′; 5′-ACGTTGGATGCATTGCTTGGGTCTTCTCAG-3′ and 5′-ACGTTGGATGGGGTTCTGGCAGATATATCC-3′; 5′-ACGTTGGATGTATGGATGCAAGCCTTTCCC-3′ and 5′-ACGTTGGATGAGGCTGAAGAATGCTTTCCC-3′; 5′-ACGTTGGATGTGTGCAGCACTTTTCACAAG-3′ and 5′-ACGTTGGATGCAGGGTCACATCACAGATTG-3′; 5′-ACGTTGGATGGCTTGTTAAATGTGTGTTCC-3′ and 5′-ACGTTGGATGTCCCTCAGTTTAGTTTTGTC-3′; 5′-ACGTTGGATGGATAATATTGTGCTGCATGCT-3′ and 5′-ACGTTGGATGACCTTGTTCTGTGTGTGTGG-3′; 5′-ACGTTGGATGCTCCCATCTATGATTTCCAG-3′ and 5′-ACGTTGGATGATGCATATCTGGAGACACAC-3′; 5′-ACGTTGGATGCCAGTCAAGGAAGCAGTTTC-3′ and 5′-ACGTTGGATGGTCTGATTAGGCCTAAGAGC-3′; 5′-ACGTTGGATGTACCATGCTCATTGAACTCG-3′ and 5′-ACGTTGGATGGGAGATTTGATAGGAAGTGC-3′; 5′-ACGTTGGATGAAATGCTACTCCAACAGAGG-3′ and 5′-ACGTTGGATGCTTCATTATCCCCACTGCTG-3′; 5′-ACGTTGGATGGATGATGAAAGCATAAGTC-3′ and 5′-ACGTTGGATGGAGATGTTGCAAAGATGCAAG-3′; 5′-ACGTTGGATGCTGGATCTTACCTCCATAGC-3′ and 5′-ACGTTGGATGACTAGAATCGTGCAGAGAAC-3′; 5′-ACGTTGGATGAAGTGCTGGGATTACAGGAG-3′ and 5′-ACGTTGGATGGAGACAGGCAAAGATGCAAC-3′; 5′-ACGTTGGATGGAGACGATTCTTCAGGAAAC-3′ and 5′-ACGTTGGATGCCATGACTCTAGTGACCTTC-3′; 5′-ACGTTGGATGTAAGCATCCATGGACCTACC-3′ and 5′-ACGTTGGATGCAGGTGGTAAATGTGCTCAG-3′; 5′-ACGTTGGATGTTGACTCACCCACTTCTGTC-3′ and 5′-ACGTTGGATGTGTTGATGAGGTGAAGAGGG-3′; 5′-ACGTTGGATGAGCTTGGGCTGAATGTTAGG-3′ and 5′-ACGTTGGATGTAAAAGCAAAACAGCTTCCC-3′; 5′-ACGTTGGATGTTTTTCCTCCTGTACCCTGC-3′ and 5′-ACGTTGGATGTACATGTGGTTAGAGTCTGG-3′; 5′-ACGTTGGATGGGGAAGGTGTTTGTCTCATA-3′ and 5′-ACGTTGGATGTGGTACAGTTTGAAAGGAGC-3′; 5′-ACGTTGGATGGCATTATGCTAAAGGCTGTC-3′ and 5′-ACGTTGGATGTCCTCTGATTTAGGCCCTTC-3′; 5′-ACGTTGGATGGGATCAAGAGGAAAAAATGGG-3′ and 5′-ACGTTGGATGTAGTTTCAATCTCTGTGCTG-3′; 5′-ACGTTGGATGCTATGTTTTCCCCCAGCTTG-3′ and 5′-ACGTTGGATGGCAAAAGAACAACCACCCAG-3′; 5′-ACGTTGGATGGACCTTCCTGTTCCTAGATG-3′ and 5′-ACGTTGGATGTGACTGGACTGTGACATAGC-3′; 5′-ACGTTGGATGAGATTGGTCCCTCACAATGG-3′ and 5′-ACGTTGGATGATTTGGCCCTGAGGCTTATC-3′; 5′-ACGTTGGATGCACTGAGAGATACAGGAAAG-3′ and 5′-ACGTTGGATGCTTGTTTCCCCAACATAAGG-3′; 5′-ACGTTGGATGATCCATCTCTGTCAGAGTTC-3′ and 5′-ACGTTGGATGAGAGAACTGACCCTTCACTG-3′; 5′-ACGTTGGATGGGTGGAGATGGGATTCTCTG-3′ and 5′-ACGTTGGATGAACCCAGTCTACACACACAG-3′; 5′-ACGTTGGATGACTGGCCATGCAGATGTAAG-3′ and 5′-ACGTTGGATGCACTGCCCATAGACTCTTTC-3′; 5′-ACGTTGGATGTTACGACCCAATCACCTTGC-3′ and 5′-ACGTTGGATGTGTGTCCCCAACCACATTTC-3′; 5′-ACGTTGGATGAACTGATGGCTCGTACTACC-3′ and 5′-ACGTTGGATGGCTCTTTTCCCTATGATGTG-3′; 5′-ACGTTGGATGGGTTTATTGGAAATGAAGTC-3′ and 5′-ACGTTGGATGGATCCTACTTACTTCCAGTC-3′; 5′-ACGTTGGATGGCAAGCATCTGCTCTTGAGG-3′ and 5′-ACGTTGGATGCTGTGTAAAAGAGTTTGAGG-3′; 5′-ACGTTGGATGGGGCTCTTATTATTGTACTC-3′ and 5′-ACGTTGGATGAACAAGCCCAAGTTCTCCAG-3′; 5′-ACGTTGGATGGGCAGAACAAGGACAGATAG-3′ and 5′-ACGTTGGATGAGTCTAGTAAAAGTTCTGCC-3′; 5′-ACGTTGGATGTACATTCAGACGATAGTGCC-3′ and 5′-ACGTTGGATGAGACCAAGTAACCCCAAACC-3′; 5′-ACGTTGGATGGTCACTGAACTCTGGAGTAG-3′ and 5′-ACGTTGGATGGCAGTTTTCAAAGGAAACCC-3′; 5′-ACGTTGGATGAGATCCTCCAGCTCATCTTC-3′ and 5′-ACGTTGGATGTAATCCTTGGAGGCTCTCTG-3′; 5′-ACGTTGGATGTAGAGCTCACAGAGCACTTC-3′ and 5′-ACGTTGGATGAGCACTTAACTGAGTCTGGG-3′; 5′-ACGTTGGATGCTTTGCTCACAAGAAAGTTGG-3 and 5′-ACGTTGGATGCCCCCAAGGCAATGATTTTC-3′; 5′-ACGTTGGATGTAATACCCTGAGCAAGGACG-3′ and 5′-ACGTTGGATGGTGCATTTAAAATCCATGTG-3′; 5′-ACGTTGGATGTGTTACAGCAGCTAGTGTTG-3′ and 5′-ACGTTGGATGCCTCTAATAGCACCCAGTTC-3′; 5′-ACGTTGGATGGTCCATTTAACGGTGTGGAG-3′ and 5′-ACGTTGGATGGGTTCATGAAATGTTAGTTCC-3′; 5′-ACGTTGGATGTATCCATCCTTCAGACACCC-3′ and 5′-ACGTTGGATGATGGGACAGTAACTGCAGAC-3′; 5′-ACGTTGGATGCTCAGTTTAAAGTCACTGCC-3′ and 5′-ACGTTGGATGTAACCCTGCAAAGACTAGAG-3′; 5′-ACGTTGGATGGCCAGCTTGTCCATTAAAGG-3′ and 5′-ACGTTGGATGCTGGCTTATAAATAAAAGACC-3′; 5′-ACGTTGGATGCATTGCAGTAACTGGAGGTC-3′ and 5′-ACGTTGGATGGGCACAGTAGTTCAGTTACC-3′; 5′-ACGTTGGATGAGTGAGACTTAACCGTGGAG-3′ and 5′-ACGTTGGATGCACCCCCACATTAGCAAAAG-3′; 5′-ACGTTGGATGATCTTCATGTCCCAAGGAGG-3′ and 5′-ACGTTGGATGCCAAGTTTATGAAACGTAG-3′; 5′-ACGTTGGATGCACATGCTAGAGAAAGAGGG-3′ and 5′-ACGTTGGATGTATGTCCTTCCCTGATTTTC-3′; 5′-ACGTTGGATGAGGATGCCTGTTGGGTTTTC-3′ and 5′-ACGTTGGATGATCAGACTTTTCCCAGGCAG-3′; 5′-ACGTTGGATGAAGCAACTGGCACTCCTAAG-3′ and 5′-ACGTTGGATGGAGTGTTGTGATGCATGCC-3′; 5′-ACGTTGGATGGTATCTCCCACTCTTGTACC-3′ and 5′-ACGTTGGATGCTGGAATACAACATTTCTGG-3′; 5′-ACGTTGGATGTTGTGTGCTATCTTACACTG-3′ and 5′-ACGTTGGATGACTAGTTGGAATGGGCTTGG-3′; 5′-ACGTTGGATGACTCCCTACCTATCTCTTTG-3′ and 5′-ACGTTGGATGTCCACAGCCACTGAATAGTC-3′; 5′-ACGTTGGATGTCATGTAACCAAGCACCACC-3′ and 5′-ACGTTGGATGGCTCATTTATAGAAGCAGTC-3′; 5′-ACGTTGGATGCAGTGGATTTCAAATCCGGC-3′ and 5′-ACGTTGGATGTGTTCAGAGGGTGTTGGATG-3′; 5′-ACGTTGGATGCATCAGCAATATAATGCCGC-3′ and 5′-ACGTTGGATGTGTGGATCACTGTTCACAGG-3′; 5′-ACGTTGGATGCACCAGTGCAAACACACAAC-3′ and 5′-ACGTTGGATGCCTGATTGTTTTGGAAGGAG-3′; 5′-ACGTTGGATGAGTTGCCATGTTTCCACAGG-3′ and 5′-ACGTTGGATGGACTAATACTCAGGTTGAGG-3′; 5′-ACGTTGGATGTGGAAGGCAGAGTGATATAC-3′ and 5′-ACGTTGGATGGCTTTCTTCACTCAGAAGGG-3′; 5′-ACGTTGGATGGAGGAGTTATAAGACCTAGAG-3′ and 5′-ACGTTGGATGACCATATCACAGTTGTTGGG-3′; 5′-ACGTTGGATGCTACGTGACCCAAAGTTCAG-3′ and 5′-ACGTTGGATGTCTCACTCCTGGTTACCTAC-3′; 5′-ACGTTGGATGTTATACAGGTTCCAGCCAGC-3′ and 5′-ACGTTGGATGCAGAGAGAAAAGGGAGTAGG-3′; 5′-ACGTTGGATGACTGATACCCTACAGTGTGC-3′ and 5′-ACGTTGGATGGTGCTCAGAGCACTTAAACG-3′; 5′-ACGTTGGATGAATCTTGGAGCCTTGGAGAC-3′ and 5′-ACGTTGGATGGTGCTTCTCACAAAAGCCTG-3′; 5′-ACGTTGGATGATCCTGGGCTTTCCTTTGTC-3′ and 5′-ACGTTGGATGGAGTCTAGTGGACAAGAGAG-3′; 5′-ACGTTGGATGTGGAGGCCACTGGATTAAAG-3′ and 5′-ACGTTGGATGAGACACAGCTAGCACTTTCC-3′; 5′-ACGTTGGATGGTTTGGTGACTATAGAAACAG-3′ and 5′-ACGTTGGATGCAGTTTAAAGTCATATTCAC-3′; 5′-ACGTTGGATGGAGCACTTATCACAGGTCAG-3′ and 5′-ACGTTGGATGGAAGGTGGGATAAACAAGGG-3′; 5′-ACGTTGGATGGTTCTGGATGTTGGCCATTC-3′ and 5′-ACGTTGGATGCCACATCATATGCATCTGGG-3′; 5′-ACGTTGGATGGAGATGAGTAAGAGCAGGTG-3′ and 5′-ACGTTGGATGCTCATAAGACCCTGAACACC-3′; and 5′-ACGTTGGATGACTGAAGCATAACGCCTCTG-3′ and 5′-ACGTTGGATGGGTGCCCAAACATGTTATGC-3′.


15. The method of claim 13, further comprising contacting the amplification products with extension primers.
 16. The method of claim 15, wherein the extension primers are: 5′-gCCTGGGAGAAAGAAAACAA-3′, 5′-catccGTTTTTCCCTCTTGACTGAAT-3′, 5′-cgggACTTACTATGGGGAATAGAAT-3′, 5′-caccTCCTGAATACTTTCTCATATAGA-3′, 5′-TGATCCACTGGCTCAA-3′, 5′-ggagGGTGGTTAGAGAACTCAATGAAT-3′, 5′-AGCCTGCACTGTGAA-3′, 5′-CAAGTCTTCTATCAAGGGAAT-3′, 5′-aCTGAGAGCAACCACTAA-3′, 5′-cGAGGAGGGCAGAGAAGAAT-3′, 5′-cccctAGAGGGCAGATAAATAGTTAAAT-3′, 5′-gtcgTCTACGGTCTTTTTCTTATCAA-3′, 5′-ctAGCTTGCTTACTTCTAAAAA-3′, 5′-aaatcTAAATAGCCAAGAAAACAGCCAA-3′, 5′-attaTGCTCAACTACCAAGTTAAGA-3′, 5′-acatGGAGTTTCCTGTACTTTAAAAAA-3′, 5′-tgAGCAAGTGCTGAGGG-3′, 5′-gATACAGCTTGGCCAAT-3′, 5′-GGGGCTGGTAGGAAAT-3′, 5′-ctcTCTTTCTCCAGGGATGA-3′, 5′-cGTGATGAGATTTCTATCATACAA-3′, 5′-cccccCCTTCCATGGGACTCATTA-3′, 5′-GACTATCCTCTTCAGACCAA-3′, 5′-cccCAAGTTGAAAACTTATTCCAA-3′, 5′-tttcAAATGTGTGTTCCATCATCTA-3′, 5′-gggtTGCTGCATGCTGTAAAT-3′, 5′-ccacATCATGCCTCTATTGACA-3′, 5′-cCAGTTTCAATAACAGATAGTAAAT-3′, 5′-aaAAAACTCAATATAGTAAAGGTATCAA-3′, 5′-GGAGGTGACATAAGTAAGTA-3′, 5′-ATGATGAAAGCATAAGTCTTTTAAT-3′, 5′-agCTTACCTCCATAGCATCTAA-3′, 5′-TGGCCAGAACTAATCAA-3′, 5′-AAGACAAAGGACACCAA-3′, 5′-caGACCTACCACCCAAAT-3′, 5′-ACTTCTGTCTCAGTATCCA-3′, 5′-ctAGCGTTTCACGTTCAAAA-3′, 5′-aaaTGCAATCTGTCTGGAAA-3′, 5′-ggtcCTTTCTGCAGCTCATATTCTGCAA-3′, 5′-GGCTGTCACAGATTTATAAAA-3′, 5′-cATGGGAAACATGCCTCAATAAAT-3′, 5′-acttTGCTAGGTCTTACATGAA-3′, 5′-acgTTCCTGTTCCTAGATGATCAAAAT-3′, 5′-AGTCTTTCTGAGCCCAA-3′, 5′-agcGAGATACAGGAAAGTGTAAAT-3′, 5′-aggTCTCAAATAAAAATGCAAAGGAAA-3′, 5′-GGGATTCTCTGGTTGTAAA-3′, 5′-gCCAACAGAGAAAGTAACAA-3′, 5′-tCCTCCTCAAACATTAAGGACAAAA-3′, 5′-tGTACTACCCAGTGGAATAAA-3′, 5′-tcTTTAAAGTGCTACATCTATGAA-3′, 5′-cgGCTCTTGAGGCAGTAAA-3′, 5′-cGGCTCTTATTATTGTACTCTATAAA-3′, 5′-atcGGTGGATGTTTCAGGGAAGTAAA-3′, 5′-ggtaAGACGATAGTGCCAGAAAAT-3′, 5′-agCAGATAGCCTCTTGTGAAT-3′, 5′-GCTCATCTTCCTCTGAA-3′, 5′-GCACTTCCCTACAAACAA-3′, 5′-TTGGAACTATCGTTCAAAAAGTATTA-3′, 5′-cccatGACGTCACCCTGTAAAAA-3′, 5′-tcGCTAGTGTTGCACTAATAAAAAAAT-3′, 5′-cccccGTGTGGAGAAGTGCGAGT-3′, 5′-AGACACCCAGGCCAA-3′, 5′-cCACTGCCAGTGACCTAA-3′, 5′-cACTTGAAAAATACTTTAGACTTTCTT-3′, 5′-gATCATTGTATAGGTTCCCAGA-3′, 5′-aaatTGAACTGTAGCAAGAAACAAA-3′, 5′-ggatGGAAAAGCTGAAAAGGAA-3′, 5′-ccctcAATCATTCTATGAAGCCAAT-3′, 5′-gTACTGAGATTGACAAGTCATTAAA-3′, 5′-TGGCACTCCTAAGACCAAA-3′, 5′-cCTCTTGTACCCCAGAAAAA-3′, 5′-cGTAGCTTCCTAGCCAAA-3′, 5′-gtcgCTTTGAAAAGCCTTAACCATTAA-3′, 5′-cccccCCCCAAAAACCTACTGAAAT-3′, 5′-GCCGCACATCAGAAT-3′, 5′-CAATCCTTTATCTCTCTCTAATAC-3′, 5′-gaagtAATGGAGAACCTGGTTAA-3′, 5′-ccCAGGATCCTCTAGATTGTGAAAA-3′, 5′-agagACTGAGACAGGCAGTAGCCTAAT-3′, 5′-tgaagGAGAGCTTAACTAAAATAAACAA-3′, 5′-ggggcCCCAAAGTTCAGGATGGTAA-3′, 5′-ACCTGATACTGAAGCCAAA-3′, 5′-TGGATATGACTTGCCCAA-3′, 5′-gTAGTTTCTTTAGCTCTTGAATAAAAT-3′, 5′-acTTGTCACACCTCTTCAAAT-3′, 5′-ggTTAAAGGAGACAATGTATGTAAAT-3′, 5′-gaagGTGTTGCCAAAAGCTAAT-3′, 5′-gtaatTGCCCCTTCAAGTGAAT-3′, 5′-GTGCTATCTCATTGTTGTTTGAAA-3′, 5′-GAGCAGGTGAAATGTTTCTA-3′, and 5′-gaCTCTGGGACTACTAAGAAGA-3′.


17. The method of claim 13, wherein the sample is from a pregnant female or a female suspected of being pregnant.
 18. The method of claim 17, wherein the sample is blood.
 19. The method of claim 13, wherein the target allele concentration is 10% or less of total nucleic acid concentration prior to cleaving and amplifying the nucleic acid.
 20. The method of claim 13, wherein four or more of the single nucleotide polymorphic loci are informative of the presence or absence of the one or more target alleles.
 21. The method of claim 13, further comprising determining whether fetal nucleic acid is present in the sample.
 22. A method for detecting in nucleic acid the presence or absence of one or more target alleles of paternal origin, comprising: a) cleaving nucleic acid from a sample with a Tsp509I restriction enzyme; b) exposing the nucleic acid after (a) to amplification conditions that amplify uncleaved nucleic acid but not cleaved nucleic acid, and which amplification conditions are capable of generating amplification products comprising some or all of the single nucleotide polymorphic loci selected from the group consisting of: rs11835780 rs748773 rs13110085 rs1363267 rs1797700 rs2723307 rs1885121 rs4589569 rs1904161 rs6766358 rs10901705 rs7689368 rs7144509 rs7900002 rs8016543 rs4489023 rs13155942 rs10260483 rs3912319 rs4533845 rs9929404 rs6556642 rs4673821 rs12674093 rs1444647 rs7741525 rs12007 rs2462049 rs6569474 rs11105611 rs6043856 and rs6142841,

thereby generating amplification products; and c) detecting the presence or absence of one or more target alleles based on the amplification products.
 23. A method for detecting in nucleic acid the presence or absence of one or more target alleles of paternal origin, comprising: a) cleaving nucleic acid from a sample with a Tsp509I restriction enzyme; b) exposing the nucleic acid after (a) to amplification conditions that amplify uncleaved nucleic acid but not cleaved nucleic acid, and which amplification conditions are capable of generating amplification products comprising some or all of the single nucleotide polymorphic loci selected from the group consisting of: rs7323716 rs4311632 rs10785736 rs13269702 rs7831906 rs2993531 rs12903747 rs1372688 rs4869315 rs1720839 rs6542638 rs6582294 rs1346718 rs10234234 rs2007475 rs11221881 rs10110766 rs494220 rs11099210 rs9428474 rs4130306 rs7294836 rs1401454 rs614004 rs179596 rs7818415 rs9787011 rs9989393 rs664358 and rs1342995,

thereby generating amplification products; and c) detecting the presence or absence of one or more target alleles based on the amplification products.
 24. A method for detecting in nucleic acid the presence or absence of one or more target alleles of paternal origin, comprising: a) cleaving nucleic acid from a sample with a Tsp509I restriction enzyme; b) exposing the nucleic acid after (a) to amplification conditions that amplify uncleaved nucleic acid but not cleaved nucleic acid, and which amplification conditions are capable of generating amplification products comprising some or all of the single nucleotide polymorphic loci selected from the group consisting of: rs6488494 rs9652080 rs10840805 rs7356482 rs4764597 rs9818611 rs2820107 rs7320201 rs12675087 rs3913810 rs725849 rs12450474 rs910500 rs1503660 rs1916803 rs683262 rs4488809 rs1041409 rs3816551 rs10754776 rs7205009 rs2734574 rs2322301 rs9285190 rs17074340 rs331893 rs9356029 rs10806232 rs10898954 rs12107918 rs263025 rs1593443 and rs273172,

thereby generating amplification products; and c) detecting the presence or absence of one or more target alleles based on the amplification products. 